#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	15:40:04 04 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	4_D6_GCCAAT_L002_R1_001.fastq
SNP	1	59	NC_007779	66457	A	frequency=1
SNP	2	62	NC_007779	97880	T	frequency=1
SNP	3	70	NC_007779	167632	A	frequency=1
SNP	4	74	NC_007779	274547	G	frequency=1
DEL	5	493,513	NC_007779	274733	97240	frequency=1
SNP	6	90	NC_007779	547694	G	frequency=1
INS	7	91	NC_007779	547831	G	frequency=1	insert_position=1
SNP	8	93	NC_007779	556858	T	frequency=1
SNP	9	95	NC_007779	569996	C	frequency=1
DEL	10	494,518	NC_007779	654214	1199	frequency=1
SNP	11	116	NC_007779	749354	A	frequency=1
SNP	12	118	NC_007779	758440	A	frequency=1
SNP	13	129	NC_007779	887234	A	frequency=1
SNP	14	134	NC_007779	987574	T	frequency=1
SNP	15	149	NC_007779	1093686	C	frequency=1
SNP	16	151	NC_007779	1097580	T	frequency=1.928339e-01
SNP	17	162	NC_007779	1170573	T	frequency=1
DEL	18	496,526	NC_007779	1301041	1336	frequency=1
SNP	19	192	NC_007779	1318876	A	frequency=1
DEL	20	497,529	NC_007779	1413639	23060	frequency=1
SNP	21	208	NC_007779	1483588	A	frequency=1
DEL	22	210	NC_007779	1496775	1	frequency=1
SNP	23	224	NC_007779	1615814	A	frequency=1
DEL	24	231	NC_007779	1669599	1	frequency=1
SNP	25	248	NC_007779	1844073	A	frequency=1
SNP	26	254	NC_007779	1918872	A	frequency=1
SNP	27	257	NC_007779	1973476	A	frequency=1
SNP	28	260	NC_007779	2005401	T	frequency=1
SNP	29	273	NC_007779	2170094	A	frequency=1
DEL	30	499,536	NC_007779	2320795	1336	frequency=1
SNP	31	285	NC_007779	2406075	T	frequency=1
SNP	32	289	NC_007779	2416102	A	frequency=1
SNP	33	299	NC_007779	2538628	T	frequency=1
INS	34	541	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=6.503526e-01
SNP	35	315	NC_007779	2866111	G	frequency=1
SNP	36	326	NC_007779	3003330	A	frequency=1
SNP	37	331	NC_007779	3049815	T	frequency=1
SNP	38	372	NC_007779	3397813	G	frequency=1
DEL	39	502,549	NC_007779	3742936	1336	frequency=1
DEL	40	503,551	NC_007779	3746911	1199	frequency=1
DEL	41	413	NC_007779	3750122	1	frequency=1
DEL	42	504,554	NC_007779	3750591	1199	frequency=1
SNP	43	432	NC_007779	3898657	G	frequency=1
DEL	44	505,556	NC_007779	3958123	34	frequency=1
SNP	45	457	NC_007779	4090749	T	frequency=1
SNP	46	462	NC_007779	4165991	C	frequency=1
DEL	47	506,559	NC_007779	4310363	1199	frequency=1
DEL	48	473,474	NC_007779	4371271	2	frequency=1
SNP	49	481	NC_007779	4546535	A	frequency=1
SNP	50	489	NC_007779	4626144	T	frequency=2.093887e-02
RA	51	.	NC_007779	301	1	.	T	bias_e_value=4452550	bias_p_value=0.958295	fisher_strand_p_value=1	frequency=8.546829e-03	genotype_quality=1138.6	ks_quality_p_value=0.725456	log10_base_likelihood=-8.29599	log10_qual_likelihood_position_model=1.15428	log10_strand_likelihood_position_model=0.316286	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=8.96921e-09	ref_cov=93/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=94/140
RA	52	.	NC_007779	5595	0	G	T	bias_e_value=0.00941076	bias_p_value=2.02542e-09	fisher_strand_p_value=8.3681e-11	frequency=9.383583e-02	genotype_quality=846.4	ks_quality_p_value=1	log10_base_likelihood=-25.402	log10_qual_likelihood_position_model=17.7984	log10_strand_likelihood_position_model=10.3479	new_cov=0/34	polymorphism_quality=20.2	quality=20.2	quality_position_model=Inf	ref_cov=135/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/151
RA	53	.	NC_007779	11143	0	G	T	bias_e_value=1.62769	bias_p_value=3.50317e-07	fisher_strand_p_value=1.86357e-08	frequency=5.014277e-02	genotype_quality=860.5	ks_quality_p_value=1	log10_base_likelihood=-6.66705	log10_qual_likelihood_position_model=19.5072	log10_strand_likelihood_position_model=7.72965	new_cov=0/23	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=134/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/126
RA	54	.	NC_007779	15382	0	A	G	bias_e_value=12.2871	bias_p_value=2.64448e-06	fisher_strand_p_value=1.58772e-07	frequency=6.441307e-02	genotype_quality=597.1	ks_quality_p_value=1	log10_base_likelihood=-5.78655	log10_qual_likelihood_position_model=15.1625	log10_strand_likelihood_position_model=6.79923	new_cov=17/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=64/110	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/110
RA	55	.	NC_007779	17050	0	A	C	bias_e_value=9.82956e-08	bias_p_value=2.11555e-14	fisher_strand_p_value=5.86474e-16	frequency=1.336813e-01	genotype_quality=554.5	ks_quality_p_value=1	log10_base_likelihood=-16.3489	log10_qual_likelihood_position_model=27.068	log10_strand_likelihood_position_model=15.2318	new_cov=0/42	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=98/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/100
RA	56	.	NC_007779	20520	0	A	.	bias_e_value=1914560	bias_p_value=0.412059	fisher_strand_p_value=0.195232	frequency=1.323891e-02	genotype_quality=609.8	ks_quality_p_value=0.708792	log10_base_likelihood=-5.80341	log10_qual_likelihood_position_model=2.15095	log10_strand_likelihood_position_model=0.709449	new_cov=2/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=0.00010073	ref_cov=65/84	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=67/84
RA	57	.	NC_007779	47305	0	G	T	bias_e_value=3.1946	bias_p_value=6.87554e-07	fisher_strand_p_value=3.80175e-08	frequency=3.771019e-02	genotype_quality=848.5	ks_quality_p_value=1	log10_base_likelihood=-5.88833	log10_qual_likelihood_position_model=17.4661	log10_strand_likelihood_position_model=7.42002	new_cov=0/19	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=144/89	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/108
RA	58	.	NC_007779	49800	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=8.580208e-03	genotype_quality=1164.6	ks_quality_p_value=0.999926	log10_base_likelihood=-6.23674	log10_qual_likelihood_position_model=3.95469	log10_strand_likelihood_position_model=0.300131	new_cov=1/1	polymorphism_quality=0.7	quality=0.7	quality_position_model=0.00109518	ref_cov=121/110	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/111
RA	59	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=1029.7	new_cov=134/113	quality=1029.7	ref_cov=0/0	tot_cov=134/113
RA	60	.	NC_007779	75074	0	T	G	bias_e_value=2.41419e-24	bias_p_value=5.19592e-31	fisher_strand_p_value=6.92323e-33	frequency=2.213054e-01	genotype_quality=616.3	ks_quality_p_value=1	log10_base_likelihood=-44.5191	log10_qual_likelihood_position_model=44.5125	log10_strand_likelihood_position_model=32.1597	new_cov=57/0	polymorphism_quality=39.4	quality=39.4	quality_position_model=Inf	ref_cov=24/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/132
RA	61	.	NC_007779	75079	0	C	T	bias_e_value=2.63165e-05	bias_p_value=5.66394e-12	fisher_strand_p_value=1.86877e-13	frequency=8.822346e-02	genotype_quality=617.1	ks_quality_p_value=1	log10_base_likelihood=-17.0596	log10_qual_likelihood_position_model=21.4094	log10_strand_likelihood_position_model=12.7284	new_cov=17/0	polymorphism_quality=11.7	quality=11.7	quality_position_model=Inf	ref_cov=21/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/136
RA	62	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=975.8	new_cov=122/112	quality=975.8	ref_cov=0/0	tot_cov=122/112
RA	63	.	NC_007779	101246	0	T	G	bias_e_value=1812.52	bias_p_value=0.000390097	fisher_strand_p_value=3.46095e-05	frequency=2.880573e-02	genotype_quality=571.3	ks_quality_p_value=1	log10_base_likelihood=-10.412	log10_qual_likelihood_position_model=6.14452	log10_strand_likelihood_position_model=4.4608	new_cov=6/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=23/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=29/120
RA	64	.	NC_007779	107544	1	.	T	bias_e_value=3142200	bias_p_value=0.676276	fisher_strand_p_value=1	frequency=2.459049e-02	genotype_quality=1165.2	ks_quality_p_value=0.31275	log10_base_likelihood=-28.1391	log10_qual_likelihood_position_model=2.97186	log10_strand_likelihood_position_model=0.500111	new_cov=3/3	polymorphism_quality=22.9	quality=22.9	quality_position_model=6.93699e-27	ref_cov=117/121	reject=INDEL_HOMOPOLYMER	tot_cov=120/124
RA	65	.	NC_007779	119384	0	T	G	bias_e_value=4.62588e-10	bias_p_value=9.95598e-17	fisher_strand_p_value=2.39481e-18	frequency=1.125093e-01	genotype_quality=766.6	ks_quality_p_value=1	log10_base_likelihood=-16.9323	log10_qual_likelihood_position_model=34.1503	log10_strand_likelihood_position_model=17.6207	new_cov=50/0	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=83/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/134
RA	66	.	NC_007779	134366	0	G	T	bias_e_value=0.000849757	bias_p_value=1.82888e-10	fisher_strand_p_value=6.85533e-12	frequency=8.143950e-02	genotype_quality=849.8	ks_quality_p_value=0.998918	log10_base_likelihood=-9.76749	log10_qual_likelihood_position_model=25.098	log10_strand_likelihood_position_model=11.1715	new_cov=1/32	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=146/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/117
RA	67	.	NC_007779	136494	0	A	.	bias_e_value=3947430	bias_p_value=0.84958	fisher_strand_p_value=0.612427	frequency=1.275921e-02	genotype_quality=959.9	ks_quality_p_value=0.82355	log10_base_likelihood=-8.59349	log10_qual_likelihood_position_model=1.31944	log10_strand_likelihood_position_model=0.43775	new_cov=2/1	polymorphism_quality=3.1	quality=3.1	quality_position_model=8.74084e-09	ref_cov=112/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/121
RA	68	.	NC_007779	146281	1	.	G	bias_e_value=3669010	bias_p_value=0.789657	fisher_strand_p_value=0.514483	frequency=9.389877e-03	genotype_quality=1042.3	ks_quality_p_value=0.828343	log10_base_likelihood=-8.01172	log10_qual_likelihood_position_model=1.70047	log10_strand_likelihood_position_model=0.457435	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=9.03099e-08	ref_cov=124/87	reject=POLYMORPHISM_STRAND	tot_cov=126/87
RA	69	.	NC_007779	164597	1	.	C	bias_e_value=731208	bias_p_value=0.157373	fisher_strand_p_value=0.0497447	frequency=3.361320e-02	genotype_quality=490.5	ks_quality_p_value=0.734002	log10_base_likelihood=-17.8907	log10_qual_likelihood_position_model=2.80143	log10_strand_likelihood_position_model=1.30325	new_cov=4/0	polymorphism_quality=12.6	quality=12.6	quality_position_model=7.01085e-16	ref_cov=53/62	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=57/62
RA	70	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=915.6	new_cov=102/118	quality=915.6	ref_cov=0/0	tot_cov=102/118
RA	71	.	NC_007779	193489	0	G	T	bias_e_value=2682.53	bias_p_value=0.000577344	fisher_strand_p_value=5.32588e-05	frequency=3.639126e-02	genotype_quality=728.5	ks_quality_p_value=1	log10_base_likelihood=-6.03099	log10_qual_likelihood_position_model=8.37808	log10_strand_likelihood_position_model=4.27361	new_cov=10/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=68/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=78/123
RA	72	.	NC_007779	194247	0	G	T	bias_e_value=0.0224551	bias_p_value=4.83286e-09	fisher_strand_p_value=2.07454e-10	frequency=6.678057e-02	genotype_quality=766.1	ks_quality_p_value=1	log10_base_likelihood=-10.4887	log10_qual_likelihood_position_model=22.7527	log10_strand_likelihood_position_model=9.68308	new_cov=0/24	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=135/76	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/100
RA	73	.	NC_007779	207536	0	G	T	bias_e_value=1121.16	bias_p_value=0.000241301	fisher_strand_p_value=2.04538e-05	frequency=3.647900e-02	genotype_quality=797.8	ks_quality_p_value=1	log10_base_likelihood=-6.82729	log10_qual_likelihood_position_model=14.5566	log10_strand_likelihood_position_model=4.834	new_cov=0/16	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=125/116	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/132
RA	74	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1109.6	new_cov=145/111	quality=1109.6	ref_cov=1/0	tot_cov=146/111
RA	75	.	NC_007779	290626	0	G	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	76	.	NC_007779	290627	0	A	G	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	77	.	NC_007779	307038	0	C	T	deleted=1	frequency=1	genotype_quality=0.9	new_cov=0/1	quality=0.9	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	78	.	NC_007779	349714	0	T	G	deleted=1	frequency=1	genotype_quality=0.8	new_cov=0/1	quality=0.8	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	79	.	NC_007779	379236	1	.	G	bias_e_value=710236	bias_p_value=0.15286	fisher_strand_p_value=0.153727	frequency=2.325630e-02	genotype_quality=816.7	ks_quality_p_value=0.228696	log10_base_likelihood=-18.6899	log10_qual_likelihood_position_model=2.61377	log10_strand_likelihood_position_model=0.884068	new_cov=4/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=2.62561e-17	ref_cov=100/68	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/68
RA	80	.	NC_007779	379237	0	G	.	bias_e_value=2000880	bias_p_value=0.430636	fisher_strand_p_value=0.197269	frequency=1.035690e-02	genotype_quality=817.2	ks_quality_p_value=0.749915	log10_base_likelihood=-5.59695	log10_qual_likelihood_position_model=1.12607	log10_strand_likelihood_position_model=0.704941	new_cov=0/2	polymorphism_quality=0.0	quality=0.0	quality_position_model=1.35535e-05	ref_cov=107/84	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=107/86
RA	81	.	NC_007779	379266	0	G	C	bias_e_value=68225.4	bias_p_value=0.0146837	fisher_strand_p_value=0.00215843	frequency=3.105640e-02	genotype_quality=708.6	ks_quality_p_value=0.945604	log10_base_likelihood=-5.81592	log10_qual_likelihood_position_model=9.4032	log10_strand_likelihood_position_model=2.66586	new_cov=8/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=90/109	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=98/109
RA	82	.	NC_007779	387919	0	A	G	bias_e_value=0.304674	bias_p_value=6.55729e-08	fisher_strand_p_value=3.18878e-09	frequency=6.495667e-02	genotype_quality=386.8	ks_quality_p_value=1	log10_base_likelihood=-11.1055	log10_qual_likelihood_position_model=10.5477	log10_strand_likelihood_position_model=8.49638	new_cov=0/9	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=99/8	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/17
RA	83	.	NC_007779	407306	0	C	A	bias_e_value=25.1047	bias_p_value=5.40312e-06	fisher_strand_p_value=3.40343e-07	frequency=6.973219e-02	genotype_quality=607.8	ks_quality_p_value=0.998805	log10_base_likelihood=-6.25714	log10_qual_likelihood_position_model=14.6636	log10_strand_likelihood_position_model=6.68929	new_cov=23/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=89/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/96
RA	84	.	NC_007779	440767	0	G	T	bias_e_value=0.0275833	bias_p_value=5.93658e-09	fisher_strand_p_value=2.57205e-10	frequency=8.103704e-02	genotype_quality=732.3	ks_quality_p_value=1	log10_base_likelihood=-15.7112	log10_qual_likelihood_position_model=19.7761	log10_strand_likelihood_position_model=9.58972	new_cov=0/27	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=126/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/113
RA	85	.	NC_007779	474686	0	G	T	bias_e_value=9.88732	bias_p_value=2.12798e-06	fisher_strand_p_value=1.26014e-07	frequency=8.876753e-02	genotype_quality=679.0	ks_quality_p_value=1	log10_base_likelihood=-14.7871	log10_qual_likelihood_position_model=23.1113	log10_strand_likelihood_position_model=6.97598	new_cov=1/28	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=108/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/128
RA	86	.	NC_007779	487248	0	C	A	bias_e_value=2383.19	bias_p_value=0.000512919	fisher_strand_p_value=4.67539e-05	frequency=4.208851e-02	genotype_quality=761.4	ks_quality_p_value=1	log10_base_likelihood=-6.18482	log10_qual_likelihood_position_model=11.1119	log10_strand_likelihood_position_model=4.33018	new_cov=0/10	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=129/70	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/80
RA	87	.	NC_007779	513848	0	A	C	bias_e_value=1.8875e-17	bias_p_value=4.06235e-24	fisher_strand_p_value=6.89273e-26	frequency=1.447349e-01	genotype_quality=639.6	ks_quality_p_value=1	log10_base_likelihood=-20.0381	log10_qual_likelihood_position_model=36.0526	log10_strand_likelihood_position_model=25.1616	new_cov=0/44	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=135/29	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/73
RA	88	.	NC_007779	522430	1	.	T	bias_e_value=4485390	bias_p_value=0.965362	fisher_strand_p_value=1	frequency=1.010132e-02	genotype_quality=993.9	ks_quality_p_value=0.748617	log10_base_likelihood=-8.47585	log10_qual_likelihood_position_model=2.02528	log10_strand_likelihood_position_model=0.320825	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=4.68193e-08	ref_cov=120/76	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/77
RA	89	.	NC_007779	524490	0	T	G	bias_e_value=1.44454	bias_p_value=3.10898e-07	fisher_strand_p_value=1.64286e-08	frequency=5.380964e-02	genotype_quality=741.3	ks_quality_p_value=1	log10_base_likelihood=-6.61437	log10_qual_likelihood_position_model=18.8378	log10_strand_likelihood_position_model=7.7844	new_cov=16/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=59/139	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=75/139
RA	90	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=945.1	new_cov=124/98	quality=945.1	ref_cov=0/0	tot_cov=124/98
RA	91	.	NC_007779	547831	1	.	G	frequency=1	genotype_quality=1036.0	new_cov=108/130	quality=1036.0	ref_cov=0/0	tot_cov=108/130
RA	92	.	NC_007779	556653	0	A	C	bias_e_value=7.20325e-12	bias_p_value=1.55031e-18	fisher_strand_p_value=3.38251e-20	frequency=1.405578e-01	genotype_quality=500.1	ks_quality_p_value=1	log10_base_likelihood=-13.566	log10_qual_likelihood_position_model=25.7809	log10_strand_likelihood_position_model=19.4708	new_cov=0/35	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=105/24	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/60
RA	93	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=1067.6	new_cov=132/125	quality=1067.6	ref_cov=0/0	tot_cov=132/125
RA	94	.	NC_007779	562836	0	C	A	bias_e_value=1065550	bias_p_value=0.229331	fisher_strand_p_value=0.0605622	frequency=2.758217e-02	genotype_quality=654.6	ks_quality_p_value=0.993807	log10_base_likelihood=-5.94739	log10_qual_likelihood_position_model=8.05177	log10_strand_likelihood_position_model=1.41296	new_cov=0/5	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=77/81	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=78/86
RA	95	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=898.0	new_cov=105/97	quality=898.0	ref_cov=0/0	tot_cov=105/97
RA	96	.	NC_007779	583703	0	T	.	bias_e_value=1681550	bias_p_value=0.361908	fisher_strand_p_value=1	frequency=1.068878e-02	genotype_quality=768.5	ks_quality_p_value=0.114162	log10_base_likelihood=-5.56797	log10_qual_likelihood_position_model=1.44444	log10_strand_likelihood_position_model=0.298813	new_cov=1/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=1.17551e-05	ref_cov=94/91	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=95/92
RA	97	.	NC_007779	593216	0	T	G	bias_e_value=1.82511e-06	bias_p_value=3.92807e-13	fisher_strand_p_value=1.18802e-14	frequency=6.418514e-02	genotype_quality=784.5	ks_quality_p_value=1	log10_base_likelihood=-13.3512	log10_qual_likelihood_position_model=24.2429	log10_strand_likelihood_position_model=13.9252	new_cov=21/0	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=35/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=57/164
RA	98	.	NC_007779	598799	0	T	G	bias_e_value=1.95216e-23	bias_p_value=4.20152e-30	fisher_strand_p_value=5.7609e-32	frequency=1.957994e-01	genotype_quality=610.3	ks_quality_p_value=1	log10_base_likelihood=-34.0445	log10_qual_likelihood_position_model=44.5429	log10_strand_likelihood_position_model=31.2395	new_cov=50/0	polymorphism_quality=28.9	quality=28.9	quality_position_model=Inf	ref_cov=19/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=70/133
RA	99	.	NC_007779	606688	0	T	.	bias_e_value=610914	bias_p_value=0.131483	fisher_strand_p_value=0.314424	frequency=1.261044e-02	genotype_quality=1294.4	ks_quality_p_value=0.0920612	log10_base_likelihood=-11.1476	log10_qual_likelihood_position_model=3.70063	log10_strand_likelihood_position_model=0.759945	new_cov=1/3	polymorphism_quality=5.7	quality=5.7	quality_position_model=1.24554e-08	ref_cov=182/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=183/134
RA	100	.	NC_007779	606911	1	.	G	bias_e_value=864401	bias_p_value=0.186039	fisher_strand_p_value=0.0497983	frequency=1.408482e-02	genotype_quality=1070.2	ks_quality_p_value=0.913312	log10_base_likelihood=-13.0599	log10_qual_likelihood_position_model=1.21658	log10_strand_likelihood_position_model=1.30279	new_cov=3/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=1.4048e-12	ref_cov=76/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=79/134
RA	101	.	NC_007779	634377	1	.	T	bias_e_value=2696810	bias_p_value=0.580416	fisher_strand_p_value=0.238586	frequency=7.083893e-03	genotype_quality=1419.0	ks_quality_p_value=0.999797	log10_base_likelihood=-6.16724	log10_qual_likelihood_position_model=3.75283	log10_strand_likelihood_position_model=0.622356	new_cov=0/2	polymorphism_quality=0.6	quality=0.6	quality_position_model=0.00177079	ref_cov=144/136	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=144/138
RA	102	.	NC_007779	645970	0	T	G	bias_e_value=6.71551e-18	bias_p_value=1.44533e-24	fisher_strand_p_value=2.40938e-26	frequency=1.673203e-01	genotype_quality=682.9	ks_quality_p_value=1	log10_base_likelihood=-40.4649	log10_qual_likelihood_position_model=35.6458	log10_strand_likelihood_position_model=25.6181	new_cov=42/0	polymorphism_quality=35.3	quality=35.3	quality_position_model=Inf	ref_cov=27/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/144
RA	103	.	NC_007779	646440	0	C	A	bias_e_value=1.31507e-06	bias_p_value=2.83035e-13	fisher_strand_p_value=8.47364e-15	frequency=6.492805e-02	genotype_quality=784.1	ks_quality_p_value=1	log10_base_likelihood=-30.8676	log10_qual_likelihood_position_model=10.6687	log10_strand_likelihood_position_model=14.0719	new_cov=0/13	polymorphism_quality=25.7	quality=25.7	quality_position_model=4.71309e-08	ref_cov=172/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=172/22
RA	104	.	NC_007779	660356	0	T	G	bias_e_value=1.14915e-14	bias_p_value=2.47324e-21	fisher_strand_p_value=4.71922e-23	frequency=1.384077e-01	genotype_quality=664.0	ks_quality_p_value=1	log10_base_likelihood=-15.6492	log10_qual_likelihood_position_model=35.64	log10_strand_likelihood_position_model=22.3261	new_cov=49/0	polymorphism_quality=10.3	quality=10.3	quality_position_model=Inf	ref_cov=47/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/130
RA	105	.	NC_007779	667446	0	A	C	bias_e_value=92788.4	bias_p_value=0.0199702	fisher_strand_p_value=0.00292148	frequency=3.460121e-02	genotype_quality=994.7	ks_quality_p_value=1	log10_base_likelihood=-15.1687	log10_qual_likelihood_position_model=14.2684	log10_strand_likelihood_position_model=2.75162	new_cov=11/0	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=134/109	reject=POLYMORPHISM_STRAND	tot_cov=145/109
RA	106	.	NC_007779	667452	0	G	T	bias_e_value=8049.29	bias_p_value=0.0017324	fisher_strand_p_value=0.000180039	frequency=5.131865e-02	genotype_quality=1074.6	ks_quality_p_value=1	log10_base_likelihood=-24.8767	log10_qual_likelihood_position_model=18.9074	log10_strand_likelihood_position_model=3.92595	new_cov=15/0	polymorphism_quality=19.6	quality=19.6	quality_position_model=0.000938337	ref_cov=136/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/119
RA	107	.	NC_007779	667460	0	G	T	bias_e_value=837763	bias_p_value=0.180306	fisher_strand_p_value=0.0436385	frequency=2.117157e-02	genotype_quality=1061.6	ks_quality_p_value=1	log10_base_likelihood=-5.62137	log10_qual_likelihood_position_model=11.8183	log10_strand_likelihood_position_model=1.65081	new_cov=7/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=143/106	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=150/106
RA	108	.	NC_007779	667461	0	A	C	bias_e_value=105722	bias_p_value=0.0227539	fisher_strand_p_value=0.00340499	frequency=2.614689e-02	genotype_quality=999.0	ks_quality_p_value=1	log10_base_likelihood=-7.67975	log10_qual_likelihood_position_model=15.5659	log10_strand_likelihood_position_model=2.5676	new_cov=11/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=143/106	reject=POLYMORPHISM_STRAND	tot_cov=154/106
RA	109	.	NC_007779	669637	0	A	.	bias_e_value=2600460	bias_p_value=0.55968	fisher_strand_p_value=1	frequency=1.110458e-02	genotype_quality=1099.8	ks_quality_p_value=0.224369	log10_base_likelihood=-8.38229	log10_qual_likelihood_position_model=1.71083	log10_strand_likelihood_position_model=0.421152	new_cov=1/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.51466e-08	ref_cov=133/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/136
RA	110	.	NC_007779	686495	0	A	C	bias_e_value=4.68065e-25	bias_p_value=1.00739e-31	fisher_strand_p_value=1.31319e-33	frequency=1.337810e-01	genotype_quality=971.1	ks_quality_p_value=1	log10_base_likelihood=-35.1971	log10_qual_likelihood_position_model=51.3483	log10_strand_likelihood_position_model=32.8817	new_cov=0/51	polymorphism_quality=30.0	quality=30.0	quality_position_model=Inf	ref_cov=204/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=204/87
RA	111	.	NC_007779	687133	0	A	C	bias_e_value=5.34394	bias_p_value=1.15014e-06	fisher_strand_p_value=6.5572e-08	frequency=2.918053e-02	genotype_quality=1142.9	ks_quality_p_value=1	log10_base_likelihood=-8.04388	log10_qual_likelihood_position_model=21.8555	log10_strand_likelihood_position_model=7.18328	new_cov=0/15	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=205/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=205/109
RA	112	.	NC_007779	697558	1	.	T	bias_e_value=1976510	bias_p_value=0.425392	fisher_strand_p_value=0.606173	frequency=1.298714e-02	genotype_quality=1138.4	ks_quality_p_value=0.239542	log10_base_likelihood=-13.2927	log10_qual_likelihood_position_model=1.63166	log10_strand_likelihood_position_model=0.446449	new_cov=2/1	polymorphism_quality=7.9	quality=7.9	quality_position_model=2.88789e-13	ref_cov=108/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/121
RA	113	.	NC_007779	706385	1	.	T	bias_e_value=4646210	bias_p_value=0.999973	fisher_strand_p_value=1	frequency=7.781029e-03	genotype_quality=1274.6	ks_quality_p_value=0.992642	log10_base_likelihood=-7.48149	log10_qual_likelihood_position_model=1.85913	log10_strand_likelihood_position_model=0.299659	new_cov=1/1	polymorphism_quality=2.0	quality=2.0	quality_position_model=3.20731e-07	ref_cov=124/131	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/132
RA	114	.	NC_007779	706386	0	T	.	bias_e_value=2603140	bias_p_value=0.560257	fisher_strand_p_value=0.247657	frequency=1.148701e-02	genotype_quality=1064.1	ks_quality_p_value=0.907526	log10_base_likelihood=-8.3417	log10_qual_likelihood_position_model=1.45646	log10_strand_likelihood_position_model=0.873383	new_cov=0/3	polymorphism_quality=2.9	quality=2.9	quality_position_model=6.19826e-08	ref_cov=127/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/134
RA	115	.	NC_007779	740131	0	A	.	bias_e_value=278390	bias_p_value=0.059916	fisher_strand_p_value=0.247337	frequency=1.175785e-02	genotype_quality=1057.6	ks_quality_p_value=0.0438539	log10_base_likelihood=-8.40163	log10_qual_likelihood_position_model=1.66081	log10_strand_likelihood_position_model=0.882751	new_cov=0/3	polymorphism_quality=2.9	quality=2.9	quality_position_model=8.93977e-08	ref_cov=125/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/130
RA	116	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=788.2	new_cov=77/112	quality=788.2	ref_cov=0/0	tot_cov=77/112
RA	117	.	NC_007779	752693	0	A	C	bias_e_value=0.000294127	bias_p_value=6.3303e-11	fisher_strand_p_value=2.2764e-12	frequency=6.037378e-02	genotype_quality=800.9	ks_quality_p_value=1	log10_base_likelihood=-6.53322	log10_qual_likelihood_position_model=26.7506	log10_strand_likelihood_position_model=11.6428	new_cov=0/25	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=151/66	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/91
RA	118	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=1000.6	new_cov=113/126	quality=1000.6	ref_cov=0/0	tot_cov=113/126
RA	119	.	NC_007779	759019	0	C	G	bias_e_value=7.236e-13	bias_p_value=1.55736e-19	fisher_strand_p_value=3.2323e-21	frequency=1.213331e-01	genotype_quality=621.7	ks_quality_p_value=1	log10_base_likelihood=-34.1362	log10_qual_likelihood_position_model=23.5169	log10_strand_likelihood_position_model=20.4905	new_cov=0/20	polymorphism_quality=29.0	quality=29.0	quality_position_model=Inf	ref_cov=136/5	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/25
RA	120	.	NC_007779	760905	0	G	.	bias_e_value=2520870	bias_p_value=0.54255	fisher_strand_p_value=0.234261	frequency=8.504868e-03	genotype_quality=987.3	ks_quality_p_value=0.909667	log10_base_likelihood=-5.58005	log10_qual_likelihood_position_model=2.05904	log10_strand_likelihood_position_model=0.6303	new_cov=2/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=0.000114532	ref_cov=112/121	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/121
RA	121	.	NC_007779	767374	0	G	.	bias_e_value=1424930	bias_p_value=0.306678	fisher_strand_p_value=0.0903418	frequency=1.274490e-02	genotype_quality=1004.2	ks_quality_p_value=0.996046	log10_base_likelihood=-7.33529	log10_qual_likelihood_position_model=4.21555	log10_strand_likelihood_position_model=1.04411	new_cov=3/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=0.000865149	ref_cov=103/129	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=106/129
RA	122	.	NC_007779	780786	0	C	A	bias_e_value=168.027	bias_p_value=3.61634e-05	fisher_strand_p_value=2.60991e-06	frequency=4.005623e-02	genotype_quality=790.4	ks_quality_p_value=1	log10_base_likelihood=-6.1863	log10_qual_likelihood_position_model=15.886	log10_strand_likelihood_position_model=5.58337	new_cov=16/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=93/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/125
RA	123	.	NC_007779	806732	0	G	A	bias_e_value=4623540	bias_p_value=0.995094	fisher_strand_p_value=1	frequency=1.174927e-02	genotype_quality=1085.9	ks_quality_p_value=0.902589	log10_base_likelihood=-5.61165	log10_qual_likelihood_position_model=1.69021	log10_strand_likelihood_position_model=0.405023	new_cov=1/2	polymorphism_quality=0.0	quality=0.0	quality_position_model=2.48354e-05	ref_cov=120/131	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=121/133
RA	124	.	NC_007779	817515	0	G	T	bias_e_value=0.0201016	bias_p_value=4.32634e-09	fisher_strand_p_value=1.84793e-10	frequency=8.881950e-02	genotype_quality=818.8	ks_quality_p_value=1	log10_base_likelihood=-18.6231	log10_qual_likelihood_position_model=25.8424	log10_strand_likelihood_position_model=9.74315	new_cov=0/32	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=128/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/142
RA	125	.	NC_007779	842195	0	C	A	bias_e_value=584.904	bias_p_value=0.000125885	fisher_strand_p_value=1.00657e-05	frequency=4.220200e-02	genotype_quality=973.4	ks_quality_p_value=1	log10_base_likelihood=-9.13142	log10_qual_likelihood_position_model=18.3056	log10_strand_likelihood_position_model=5.22642	new_cov=19/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=144/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=163/136
RA	126	.	NC_007779	847635	0	A	C	bias_e_value=0.185779	bias_p_value=3.99841e-08	fisher_strand_p_value=1.89649e-09	frequency=6.078815e-02	genotype_quality=647.8	ks_quality_p_value=1	log10_base_likelihood=-9.49664	log10_qual_likelihood_position_model=21.3697	log10_strand_likelihood_position_model=8.72205	new_cov=16/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=42/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=58/126
RA	127	.	NC_007779	881118	0	T	.	bias_e_value=4630250	bias_p_value=0.996539	fisher_strand_p_value=1	frequency=1.089191e-02	genotype_quality=1126.1	ks_quality_p_value=0.917964	log10_base_likelihood=-7.36033	log10_qual_likelihood_position_model=3.85385	log10_strand_likelihood_position_model=0.399814	new_cov=1/2	polymorphism_quality=1.9	quality=1.9	quality_position_model=6.74557e-05	ref_cov=128/144	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/146
RA	128	.	NC_007779	884191	1	.	T	bias_e_value=2552300	bias_p_value=0.549315	fisher_strand_p_value=0.217504	frequency=8.653641e-03	genotype_quality=1151.9	ks_quality_p_value=1	log10_base_likelihood=-5.82856	log10_qual_likelihood_position_model=4.42431	log10_strand_likelihood_position_model=0.662532	new_cov=0/2	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.0289922	ref_cov=123/106	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=123/108
RA	129	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=864.6	new_cov=129/92	quality=864.6	ref_cov=0/0	tot_cov=129/92
RA	130	.	NC_007779	904838	0	C	A	bias_e_value=2.64256e-06	bias_p_value=5.68741e-13	fisher_strand_p_value=1.84244e-14	frequency=1.162496e-01	genotype_quality=845.1	ks_quality_p_value=0.94452	log10_base_likelihood=-28.9311	log10_qual_likelihood_position_model=30.5048	log10_strand_likelihood_position_model=13.7346	new_cov=39/0	polymorphism_quality=23.7	quality=23.7	quality_position_model=Inf	ref_cov=96/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/144
RA	131	.	NC_007779	954820	0	A	C	bias_e_value=0.00146573	bias_p_value=3.15459e-10	fisher_strand_p_value=1.20678e-11	frequency=9.795761e-02	genotype_quality=510.2	ks_quality_p_value=1	log10_base_likelihood=-7.30964	log10_qual_likelihood_position_model=21.283	log10_strand_likelihood_position_model=10.9184	new_cov=0/29	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=90/51	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=90/80
RA	132	.	NC_007779	969494	0	C	A	bias_e_value=107.102	bias_p_value=2.30509e-05	fisher_strand_p_value=1.60735e-06	frequency=6.961441e-02	genotype_quality=605.8	ks_quality_p_value=1	log10_base_likelihood=-11.9399	log10_qual_likelihood_position_model=14.4896	log10_strand_likelihood_position_model=6.00899	new_cov=21/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=89/93	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/93
RA	133	.	NC_007779	986260	1	.	A	bias_e_value=4282060	bias_p_value=0.9216	fisher_strand_p_value=1	frequency=8.771896e-03	genotype_quality=1140.5	ks_quality_p_value=0.631123	log10_base_likelihood=-8.46834	log10_qual_likelihood_position_model=1.15453	log10_strand_likelihood_position_model=0.30396	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=5.79238e-09	ref_cov=125/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/102
RA	134	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=870.8	new_cov=83/126	quality=870.8	ref_cov=0/0	tot_cov=83/126
RA	135	.	NC_007779	987916	0	T	G	bias_e_value=0.014176	bias_p_value=3.051e-09	fisher_strand_p_value=1.2832e-10	frequency=1.027408e-01	genotype_quality=421.4	ks_quality_p_value=1	log10_base_likelihood=-10.8675	log10_qual_likelihood_position_model=17.0179	log10_strand_likelihood_position_model=9.89171	new_cov=14/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=14/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=28/86
RA	136	.	NC_007779	991407	0	G	T	bias_e_value=11.1778	bias_p_value=2.40572e-06	fisher_strand_p_value=1.94463e-07	frequency=7.053518e-02	genotype_quality=760.1	ks_quality_p_value=0.738289	log10_base_likelihood=-12.988	log10_qual_likelihood_position_model=25.6644	log10_strand_likelihood_position_model=6.81391	new_cov=0/26	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=107/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/144
RA	137	.	NC_007779	999606	0	A	T	bias_e_value=55178.2	bias_p_value=0.0118756	fisher_strand_p_value=0.00159615	frequency=5.566740e-02	genotype_quality=608.0	ks_quality_p_value=1	log10_base_likelihood=-11.9272	log10_qual_likelihood_position_model=11.0752	log10_strand_likelihood_position_model=2.94518	new_cov=10/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=76/79	reject=POLYMORPHISM_STRAND	tot_cov=86/79
RA	138	.	NC_007779	999607	0	A	C	bias_e_value=3886.25	bias_p_value=0.000836413	fisher_strand_p_value=8.01838e-05	frequency=6.272697e-02	genotype_quality=596.3	ks_quality_p_value=1	log10_base_likelihood=-11.3897	log10_qual_likelihood_position_model=15.5535	log10_strand_likelihood_position_model=4.20114	new_cov=14/0	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=72/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/79
RA	139	.	NC_007779	999613	0	A	T	bias_e_value=32712.2	bias_p_value=0.00704044	fisher_strand_p_value=0.000875613	frequency=9.588766e-02	genotype_quality=588.4	ks_quality_p_value=1	log10_base_likelihood=-29.3195	log10_qual_likelihood_position_model=16.973	log10_strand_likelihood_position_model=3.32487	new_cov=15/1	polymorphism_quality=24.1	quality=24.1	quality_position_model=5.00013e-11	ref_cov=72/72	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/73
RA	140	.	NC_007779	999623	0	A	T	bias_e_value=225639	bias_p_value=0.0485628	fisher_strand_p_value=0.00840311	frequency=4.855204e-02	genotype_quality=586.4	ks_quality_p_value=1	log10_base_likelihood=-13.0304	log10_qual_likelihood_position_model=9.03762	log10_strand_likelihood_position_model=2.15176	new_cov=8/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=0.00156378	ref_cov=76/69	reject=POLYMORPHISM_STRAND	tot_cov=84/69
RA	141	.	NC_007779	999625	0	T	C	bias_e_value=132689	bias_p_value=0.0285579	fisher_strand_p_value=0.00445218	frequency=4.232121e-02	genotype_quality=557.5	ks_quality_p_value=1	log10_base_likelihood=-7.11724	log10_qual_likelihood_position_model=11.2116	log10_strand_likelihood_position_model=2.40599	new_cov=9/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=75/68	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=84/68
RA	142	.	NC_007779	999627	0	A	T	bias_e_value=1119690	bias_p_value=0.240984	fisher_strand_p_value=0.0643847	frequency=2.755737e-02	genotype_quality=601.2	ks_quality_p_value=1	log10_base_likelihood=-5.91416	log10_qual_likelihood_position_model=6.62248	log10_strand_likelihood_position_model=1.32604	new_cov=5/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=79/69	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=84/69
RA	143	.	NC_007779	1006080	0	C	A	bias_e_value=1.20764	bias_p_value=2.59913e-07	fisher_strand_p_value=1.35985e-08	frequency=7.813406e-02	genotype_quality=713.9	ks_quality_p_value=1	log10_base_likelihood=-11.2357	log10_qual_likelihood_position_model=19.4552	log10_strand_likelihood_position_model=8.16754	new_cov=25/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=89/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/114
RA	144	.	NC_007779	1019391	0	A	.	bias_e_value=4619460	bias_p_value=0.994216	fisher_strand_p_value=1	frequency=1.561832e-02	genotype_quality=1057.1	ks_quality_p_value=0.894396	log10_base_likelihood=-11.77	log10_qual_likelihood_position_model=1.54958	log10_strand_likelihood_position_model=0.42277	new_cov=2/2	polymorphism_quality=6.4	quality=6.4	quality_position_model=8.04908e-12	ref_cov=124/128	reject=INDEL_HOMOPOLYMER	tot_cov=126/130
RA	145	.	NC_007779	1030153	1	.	A	bias_e_value=3756910	bias_p_value=0.808576	fisher_strand_p_value=0.498398	frequency=8.928299e-03	genotype_quality=1077.8	ks_quality_p_value=0.901003	log10_base_likelihood=-7.97123	log10_qual_likelihood_position_model=2.61937	log10_strand_likelihood_position_model=0.573397	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.18064e-06	ref_cov=114/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/108
RA	146	.	NC_007779	1058914	0	A	C	bias_e_value=0.00488005	bias_p_value=1.0503e-09	fisher_strand_p_value=4.22001e-11	frequency=5.441666e-02	genotype_quality=614.3	ks_quality_p_value=1	log10_base_likelihood=-6.80606	log10_qual_likelihood_position_model=21.5343	log10_strand_likelihood_position_model=10.3747	new_cov=0/17	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=125/32	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/49
RA	147	.	NC_007779	1072428	0	T	G	bias_e_value=0.661284	bias_p_value=1.42324e-07	fisher_strand_p_value=7.20692e-09	frequency=5.451488e-02	genotype_quality=616.9	ks_quality_p_value=1	log10_base_likelihood=-5.78241	log10_qual_likelihood_position_model=19.2466	log10_strand_likelihood_position_model=8.14225	new_cov=20/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=60/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=80/109
RA	148	.	NC_007779	1079013	0	C	A	bias_e_value=74.8538	bias_p_value=1.61103e-05	fisher_strand_p_value=1.09485e-06	frequency=4.559326e-02	genotype_quality=733.4	ks_quality_p_value=0.999248	log10_base_likelihood=-6.83029	log10_qual_likelihood_position_model=13.0144	log10_strand_likelihood_position_model=5.96064	new_cov=18/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=93/117	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/117
RA	149	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=948.1	new_cov=102/111	quality=948.1	ref_cov=0/0	tot_cov=102/111
RA	150	.	NC_007779	1097402	1	.	A	bias_e_value=2585120	bias_p_value=0.55638	fisher_strand_p_value=1	frequency=8.546829e-03	genotype_quality=1494.4	ks_quality_p_value=0.222168	log10_base_likelihood=-12.2665	log10_qual_likelihood_position_model=3.01874	log10_strand_likelihood_position_model=0.385821	new_cov=1/2	polymorphism_quality=6.9	quality=6.9	quality_position_model=7.2835e-11	ref_cov=156/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=157/194
RA	151	.	NC_007779	1097580	0	C	T	bias_e_value=1039640	bias_p_value=0.223754	fisher_strand_p_value=0.774694	frequency=1.928339e-01	genotype_quality=792.4	ks_quality_p_value=0.0751449	log10_base_likelihood=-178.945	log10_qual_likelihood_position_model=16.1263	log10_strand_likelihood_position_model=0.965119	new_cov=27/33	polymorphism_quality=174.1	quality=174.1	quality_position_model=1.77557e-164	ref_cov=119/132	tot_cov=146/165
RA	152	.	NC_007779	1097764	1	.	A	bias_e_value=4517630	bias_p_value=0.9723	fisher_strand_p_value=1	frequency=4.040718e-03	genotype_quality=2061.2	ks_quality_p_value=0.774056	log10_base_likelihood=-7.77173	log10_qual_likelihood_position_model=1.51304	log10_strand_likelihood_position_model=0.305547	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=7.12819e-08	ref_cov=219/274	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=220/275
RA	153	.	NC_007779	1097815	0	G	.	bias_e_value=3680570	bias_p_value=0.792144	fisher_strand_p_value=1	frequency=9.385109e-03	genotype_quality=759.4	ks_quality_p_value=0.429097	log10_base_likelihood=-5.74537	log10_qual_likelihood_position_model=1.67517	log10_strand_likelihood_position_model=0.305011	new_cov=1/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.35782e-05	ref_cov=118/93	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/94
RA	154	.	NC_007779	1105181	1	.	T	bias_e_value=2465450	bias_p_value=0.530622	fisher_strand_p_value=0.356289	frequency=1.626015e-02	genotype_quality=1206.8	ks_quality_p_value=0.576704	log10_base_likelihood=-18.116	log10_qual_likelihood_position_model=2.1244	log10_strand_likelihood_position_model=0.631619	new_cov=3/1	polymorphism_quality=12.8	quality=12.8	quality_position_model=1.77413e-17	ref_cov=116/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/127
RA	155	.	NC_007779	1115091	0	C	A	bias_e_value=993.573	bias_p_value=0.00021384	fisher_strand_p_value=1.79257e-05	frequency=5.081892e-02	genotype_quality=703.1	ks_quality_p_value=1	log10_base_likelihood=-5.76254	log10_qual_likelihood_position_model=12.0485	log10_strand_likelihood_position_model=4.74652	new_cov=0/12	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=118/73	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/85
RA	156	.	NC_007779	1116582	0	G	C	bias_e_value=5.43312e-16	bias_p_value=1.16934e-22	fisher_strand_p_value=2.10626e-24	frequency=1.657147e-01	genotype_quality=475.1	ks_quality_p_value=1	log10_base_likelihood=-39.6406	log10_qual_likelihood_position_model=21.7635	log10_strand_likelihood_position_model=23.6765	new_cov=0/25	polymorphism_quality=34.5	quality=34.5	quality_position_model=Inf	ref_cov=118/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/29
RA	157	.	NC_007779	1120197	0	C	A	bias_e_value=9.39935	bias_p_value=2.02296e-06	fisher_strand_p_value=1.19414e-07	frequency=4.409885e-02	genotype_quality=671.8	ks_quality_p_value=1	log10_base_likelihood=-6.13705	log10_qual_likelihood_position_model=12.3706	log10_strand_likelihood_position_model=6.92294	new_cov=17/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=71/124	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/124
RA	158	.	NC_007779	1148417	0	C	A	bias_e_value=0.24579	bias_p_value=5.28998e-08	fisher_strand_p_value=3.05885e-09	frequency=9.547710e-02	genotype_quality=692.4	ks_quality_p_value=0.831871	log10_base_likelihood=-17.0499	log10_qual_likelihood_position_model=25.9085	log10_strand_likelihood_position_model=8.75895	new_cov=29/0	polymorphism_quality=11.7	quality=11.7	quality_position_model=Inf	ref_cov=92/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/107
RA	159	.	NC_007779	1151485	0	C	A	bias_e_value=128.967	bias_p_value=2.77567e-05	fisher_strand_p_value=1.96284e-06	frequency=4.654264e-02	genotype_quality=807.7	ks_quality_p_value=1	log10_base_likelihood=-6.51905	log10_qual_likelihood_position_model=14.5281	log10_strand_likelihood_position_model=5.86501	new_cov=19/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=108/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/122
RA	160	.	NC_007779	1155150	0	T	G	bias_e_value=9304.3	bias_p_value=0.0020025	fisher_strand_p_value=0.00021167	frequency=3.209972e-02	genotype_quality=561.7	ks_quality_p_value=1	log10_base_likelihood=-8.75561	log10_qual_likelihood_position_model=7.06475	log10_strand_likelihood_position_model=3.67434	new_cov=5/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=23/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=28/115
RA	161	.	NC_007779	1158848	0	T	G	bias_e_value=7.10794e-13	bias_p_value=1.5298e-19	fisher_strand_p_value=3.1739e-21	frequency=1.299553e-01	genotype_quality=663.2	ks_quality_p_value=1	log10_base_likelihood=-13.652	log10_qual_likelihood_position_model=35.6033	log10_strand_likelihood_position_model=20.4984	new_cov=47/0	polymorphism_quality=8.3	quality=8.3	quality_position_model=Inf	ref_cov=50/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/125
RA	162	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=1149.8	new_cov=187/86	quality=1149.8	ref_cov=0/0	tot_cov=187/86
RA	163	.	NC_007779	1176573	0	A	G	bias_e_value=88975.7	bias_p_value=0.0191497	fisher_strand_p_value=0.00278145	frequency=2.844620e-02	genotype_quality=781.8	ks_quality_p_value=1	log10_base_likelihood=-6.50114	log10_qual_likelihood_position_model=11.3809	log10_strand_likelihood_position_model=2.55573	new_cov=0/8	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=107/94	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=107/102
RA	164	.	NC_007779	1176575	0	G	T	bias_e_value=119053	bias_p_value=0.0256229	fisher_strand_p_value=0.00392167	frequency=2.751255e-02	genotype_quality=841.2	ks_quality_p_value=0.998635	log10_base_likelihood=-7.58517	log10_qual_likelihood_position_model=9.5578	log10_strand_likelihood_position_model=2.40653	new_cov=0/7	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=111/88	reject=POLYMORPHISM_STRAND	tot_cov=111/95
RA	165	.	NC_007779	1177683	0	A	G	bias_e_value=0.0100321	bias_p_value=2.15914e-09	fisher_strand_p_value=8.94523e-11	frequency=7.222939e-02	genotype_quality=687.8	ks_quality_p_value=1	log10_base_likelihood=-9.46591	log10_qual_likelihood_position_model=17.9984	log10_strand_likelihood_position_model=10.0484	new_cov=19/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=50/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/143
RA	166	.	NC_007779	1224173	0	G	A	bias_e_value=83.3729	bias_p_value=1.79438e-05	fisher_strand_p_value=1.22819e-06	frequency=5.843973e-02	genotype_quality=759.4	ks_quality_p_value=1	log10_base_likelihood=-6.63594	log10_qual_likelihood_position_model=18.2047	log10_strand_likelihood_position_model=5.91073	new_cov=0/18	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=119/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/114
RA	167	.	NC_007779	1242830	0	G	T	bias_e_value=5.06275	bias_p_value=1.08962e-06	fisher_strand_p_value=6.19194e-08	frequency=6.189680e-02	genotype_quality=710.5	ks_quality_p_value=1	log10_base_likelihood=-6.77345	log10_qual_likelihood_position_model=18.1598	log10_strand_likelihood_position_model=7.20817	new_cov=0/22	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=114/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/112
RA	168	.	NC_007779	1273399	0	T	G	bias_e_value=5.49448e-29	bias_p_value=1.18254e-35	fisher_strand_p_value=1.37704e-37	frequency=1.998401e-01	genotype_quality=656.1	ks_quality_p_value=1	log10_base_likelihood=-39.4258	log10_qual_likelihood_position_model=46.7105	log10_strand_likelihood_position_model=36.8611	new_cov=56/0	polymorphism_quality=34.3	quality=34.3	quality_position_model=Inf	ref_cov=16/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/144
RA	169	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=69.4	new_cov=12/7	quality=69.4	ref_cov=0/0	tot_cov=12/7
RA	170	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=21.7	new_cov=5/2	quality=21.7	ref_cov=0/0	tot_cov=5/2
RA	171	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=32.7	new_cov=5/9	quality=32.7	ref_cov=0/0	tot_cov=5/9
RA	172	.	NC_007779	1289242	1	.	G	bias_e_value=463764	bias_p_value=0.0998129	fisher_strand_p_value=0.0667481	frequency=1.408482e-02	genotype_quality=1066.4	ks_quality_p_value=0.305671	log10_base_likelihood=-13.2033	log10_qual_likelihood_position_model=1.55708	log10_strand_likelihood_position_model=1.17556	new_cov=3/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=1.65528e-12	ref_cov=84/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=87/126
RA	173	.	NC_007779	1301041	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	174	.	NC_007779	1301043	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	175	.	NC_007779	1301044	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	176	.	NC_007779	1301045	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	177	.	NC_007779	1301046	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	178	.	NC_007779	1301047	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	179	.	NC_007779	1301048	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	180	.	NC_007779	1301049	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	181	.	NC_007779	1301050	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	182	.	NC_007779	1301051	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	183	.	NC_007779	1301052	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	184	.	NC_007779	1301053	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	185	.	NC_007779	1301056	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	186	.	NC_007779	1301057	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	187	.	NC_007779	1301058	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	188	.	NC_007779	1301059	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	189	.	NC_007779	1301060	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	190	.	NC_007779	1301062	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	191	.	NC_007779	1301064	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	192	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=1027.3	new_cov=123/124	quality=1027.3	ref_cov=0/0	tot_cov=124/124
RA	193	.	NC_007779	1348546	1	.	T	bias_e_value=2356810	bias_p_value=0.507241	fisher_strand_p_value=0.232746	frequency=7.379532e-03	genotype_quality=1352.8	ks_quality_p_value=0.820753	log10_base_likelihood=-8.21704	log10_qual_likelihood_position_model=1.33285	log10_strand_likelihood_position_model=0.633118	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.50832e-08	ref_cov=129/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/140
RA	194	.	NC_007779	1352913	1	.	T	bias_e_value=29469.2	bias_p_value=0.00634247	fisher_strand_p_value=0.00222181	frequency=4.137993e-02	genotype_quality=652.8	ks_quality_p_value=0.349847	log10_base_likelihood=-28.8242	log10_qual_likelihood_position_model=2.93724	log10_strand_likelihood_position_model=2.65329	new_cov=6/0	polymorphism_quality=23.6	quality=23.6	quality_position_model=1.93825e-25	ref_cov=48/91	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=54/91
RA	195	.	NC_007779	1352922	0	T	C	bias_e_value=28.5807	bias_p_value=6.15124e-06	fisher_strand_p_value=3.90404e-07	frequency=5.854940e-02	genotype_quality=422.2	ks_quality_p_value=1	log10_base_likelihood=-10.0034	log10_qual_likelihood_position_model=9.43432	log10_strand_likelihood_position_model=6.40849	new_cov=8/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=15/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=23/103
RA	196	.	NC_007779	1352924	0	A	C	bias_e_value=37.0005	bias_p_value=7.96337e-06	fisher_strand_p_value=5.14422e-07	frequency=5.100346e-02	genotype_quality=422.8	ks_quality_p_value=1	log10_base_likelihood=-9.08497	log10_qual_likelihood_position_model=9.42285	log10_strand_likelihood_position_model=6.28868	new_cov=8/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=16/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=24/105
RA	197	.	NC_007779	1371749	1	.	T	bias_e_value=4448150	bias_p_value=0.957347	fisher_strand_p_value=1	frequency=1.915550e-02	genotype_quality=1262.4	ks_quality_p_value=0.722523	log10_base_likelihood=-21.3444	log10_qual_likelihood_position_model=4.23578	log10_strand_likelihood_position_model=0.496878	new_cov=2/3	polymorphism_quality=16.1	quality=16.1	quality_position_model=9.56411e-19	ref_cov=127/129	reject=INDEL_HOMOPOLYMER	tot_cov=129/132
RA	198	.	NC_007779	1374996	0	A	C	bias_e_value=3.8021	bias_p_value=8.18301e-07	fisher_strand_p_value=4.57129e-08	frequency=4.189587e-02	genotype_quality=686.2	ks_quality_p_value=1	log10_base_likelihood=-6.99532	log10_qual_likelihood_position_model=15.7591	log10_strand_likelihood_position_model=7.33996	new_cov=13/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=43/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/133
RA	199	.	NC_007779	1375289	0	G	T	bias_e_value=131.351	bias_p_value=2.82699e-05	fisher_strand_p_value=2.00192e-06	frequency=4.385662e-02	genotype_quality=728.6	ks_quality_p_value=1	log10_base_likelihood=-7.53594	log10_qual_likelihood_position_model=13.3839	log10_strand_likelihood_position_model=5.69855	new_cov=0/17	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=122/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/115
RA	200	.	NC_007779	1378219	0	A	C	bias_e_value=3.07786e-07	bias_p_value=6.62428e-14	fisher_strand_p_value=1.89819e-15	frequency=1.163650e-01	genotype_quality=597.9	ks_quality_p_value=1	log10_base_likelihood=-12.8018	log10_qual_likelihood_position_model=41.8007	log10_strand_likelihood_position_model=14.7217	new_cov=0/39	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=105/57	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/96
RA	201	.	NC_007779	1405508	0	G	T	bias_e_value=2.61228	bias_p_value=5.62224e-07	fisher_strand_p_value=3.1389e-08	frequency=7.617903e-02	genotype_quality=503.6	ks_quality_p_value=0.97887	log10_base_likelihood=-17.5736	log10_qual_likelihood_position_model=12.524	log10_strand_likelihood_position_model=7.50322	new_cov=11/0	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=21/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=32/102
RA	202	.	NC_007779	1409137	0	G	T	bias_e_value=2.04133e-14	bias_p_value=4.39342e-21	fisher_strand_p_value=8.57867e-23	frequency=2.231207e-01	genotype_quality=574.1	ks_quality_p_value=0.988253	log10_base_likelihood=-52.5234	log10_qual_likelihood_position_model=28.3287	log10_strand_likelihood_position_model=22.0666	new_cov=0/57	polymorphism_quality=47.4	quality=47.4	quality_position_model=0.000758354	ref_cov=116/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/111
RA	203	.	NC_007779	1412694	0	C	A	bias_e_value=0.777546	bias_p_value=1.67346e-07	fisher_strand_p_value=8.54784e-09	frequency=6.447124e-02	genotype_quality=778.3	ks_quality_p_value=1	log10_base_likelihood=-7.15348	log10_qual_likelihood_position_model=18.3175	log10_strand_likelihood_position_model=8.37372	new_cov=28/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=107/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/120
RA	204	.	NC_007779	1414141	0	C	A	deleted=1	frequency=1	genotype_quality=0.7	new_cov=1/0	quality=0.7	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	205	.	NC_007779	1437447	0	G	C	bias_e_value=0.00539905	bias_p_value=1.162e-09	fisher_strand_p_value=4.68865e-11	frequency=5.551243e-02	genotype_quality=752.4	ks_quality_p_value=1	log10_base_likelihood=-6.29643	log10_qual_likelihood_position_model=17.2849	log10_strand_likelihood_position_model=10.329	new_cov=0/19	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=154/52	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/71
RA	206	.	NC_007779	1438936	1	.	T	bias_e_value=200847	bias_p_value=0.043227	fisher_strand_p_value=0.155432	frequency=1.041698e-02	genotype_quality=950.0	ks_quality_p_value=0.0469814	log10_base_likelihood=-8.65243	log10_qual_likelihood_position_model=1.78618	log10_strand_likelihood_position_model=0.80846	new_cov=0/2	polymorphism_quality=3.2	quality=3.2	quality_position_model=5.55631e-08	ref_cov=116/74	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/76
RA	207	.	NC_007779	1469652	0	T	C	bias_e_value=2622780	bias_p_value=0.564483	fisher_strand_p_value=0.255631	frequency=1.721573e-02	genotype_quality=688.2	ks_quality_p_value=0.890339	log10_base_likelihood=-6.94241	log10_qual_likelihood_position_model=1.48342	log10_strand_likelihood_position_model=0.767357	new_cov=0/3	polymorphism_quality=1.4	quality=1.4	quality_position_model=1.45421e-06	ref_cov=77/94	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=77/97
RA	208	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=692.2	new_cov=124/47	quality=692.2	ref_cov=0/0	tot_cov=124/47
RA	209	.	NC_007779	1493621	0	T	C	bias_e_value=5.39323	bias_p_value=1.16075e-06	fisher_strand_p_value=6.62136e-08	frequency=4.755306e-02	genotype_quality=840.0	ks_quality_p_value=1	log10_base_likelihood=-8.56652	log10_qual_likelihood_position_model=18.2399	log10_strand_likelihood_position_model=7.17905	new_cov=0/16	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=149/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/91
RA	210	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=1117.3	new_cov=93/135	quality=1117.3	ref_cov=0/0	tot_cov=93/135
RA	211	.	NC_007779	1504851	0	C	A	bias_e_value=3300.43	bias_p_value=0.000710331	fisher_strand_p_value=6.69382e-05	frequency=6.314516e-02	genotype_quality=627.5	ks_quality_p_value=1	log10_base_likelihood=-7.44803	log10_qual_likelihood_position_model=16.6421	log10_strand_likelihood_position_model=4.42129	new_cov=22/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=123/79	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/79
RA	212	.	NC_007779	1507752	0	A	C	bias_e_value=2.24393	bias_p_value=4.82946e-07	fisher_strand_p_value=2.61633e-08	frequency=5.881071e-02	genotype_quality=635.0	ks_quality_p_value=1	log10_base_likelihood=-6.22938	log10_qual_likelihood_position_model=19.0723	log10_strand_likelihood_position_model=7.58231	new_cov=0/23	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=103/79	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/102
RA	213	.	NC_007779	1515709	0	A	G	bias_e_value=0.0854679	bias_p_value=1.83947e-08	fisher_strand_p_value=8.40034e-10	frequency=5.702877e-02	genotype_quality=766.7	ks_quality_p_value=1	log10_base_likelihood=-7.02055	log10_qual_likelihood_position_model=26.3395	log10_strand_likelihood_position_model=9.0757	new_cov=20/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=69/146	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=89/147
RA	214	.	NC_007779	1527474	0	G	A	bias_e_value=0.518346	bias_p_value=1.1156e-07	fisher_strand_p_value=5.57672e-09	frequency=1.108117e-01	genotype_quality=651.8	ks_quality_p_value=1	log10_base_likelihood=-19.7107	log10_qual_likelihood_position_model=24.7651	log10_strand_likelihood_position_model=8.27152	new_cov=0/27	polymorphism_quality=14.4	quality=14.4	quality_position_model=Inf	ref_cov=102/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/114
RA	215	.	NC_007779	1527479	0	C	A	bias_e_value=3664.28	bias_p_value=0.000788638	fisher_strand_p_value=8.23372e-05	frequency=4.952097e-02	genotype_quality=758.9	ks_quality_p_value=0.912534	log10_base_likelihood=-8.46175	log10_qual_likelihood_position_model=19.3287	log10_strand_likelihood_position_model=4.26132	new_cov=0/14	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=106/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/111
RA	216	.	NC_007779	1530864	0	C	A	bias_e_value=1696.88	bias_p_value=0.000365208	fisher_strand_p_value=3.21948e-05	frequency=5.725384e-02	genotype_quality=475.8	ks_quality_p_value=1	log10_base_likelihood=-6.13801	log10_qual_likelihood_position_model=11.5842	log10_strand_likelihood_position_model=4.50774	new_cov=12/1	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=44/92	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/93
RA	217	.	NC_007779	1533124	0	C	A	bias_e_value=496652	bias_p_value=0.106891	fisher_strand_p_value=0.0222423	frequency=3.640270e-02	genotype_quality=700.6	ks_quality_p_value=1	log10_base_likelihood=-7.96182	log10_qual_likelihood_position_model=9.39168	log10_strand_likelihood_position_model=1.82444	new_cov=0/8	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=68/94	reject=POLYMORPHISM_STRAND	tot_cov=68/102
RA	218	.	NC_007779	1533140	0	C	A	bias_e_value=1130840	bias_p_value=0.243383	fisher_strand_p_value=0.0674563	frequency=3.132057e-02	genotype_quality=661.0	ks_quality_p_value=0.967461	log10_base_likelihood=-10.0114	log10_qual_likelihood_position_model=7.64496	log10_strand_likelihood_position_model=1.2821	new_cov=0/5	polymorphism_quality=4.6	quality=4.6	quality_position_model=0.0111921	ref_cov=70/84	reject=POLYMORPHISM_STRAND	tot_cov=70/89
RA	219	.	NC_007779	1537499	0	A	G	bias_e_value=2.80974	bias_p_value=6.04722e-07	fisher_strand_p_value=3.3188e-08	frequency=7.100439e-02	genotype_quality=689.1	ks_quality_p_value=1	log10_base_likelihood=-9.86257	log10_qual_likelihood_position_model=16.208	log10_strand_likelihood_position_model=7.47902	new_cov=22/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=89/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/119
RA	220	.	NC_007779	1552377	0	A	C	bias_e_value=1.00543e-05	bias_p_value=2.16392e-12	fisher_strand_p_value=6.91286e-14	frequency=1.281533e-01	genotype_quality=579.6	ks_quality_p_value=1	log10_base_likelihood=-13.7128	log10_qual_likelihood_position_model=27.8117	log10_strand_likelihood_position_model=13.1603	new_cov=0/36	polymorphism_quality=8.3	quality=8.3	quality_position_model=Inf	ref_cov=101/59	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/95
RA	221	.	NC_007779	1578935	0	C	.	bias_e_value=2212420	bias_p_value=0.476164	fisher_strand_p_value=0.503546	frequency=8.506775e-03	genotype_quality=1016.0	ks_quality_p_value=0.343158	log10_base_likelihood=-5.74355	log10_qual_likelihood_position_model=1.40262	log10_strand_likelihood_position_model=0.515751	new_cov=2/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.17419e-05	ref_cov=128/105	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/105
RA	222	.	NC_007779	1581577	1	.	T	bias_e_value=2002320	bias_p_value=0.430946	fisher_strand_p_value=1	frequency=8.546829e-03	genotype_quality=1170.9	ks_quality_p_value=0.148097	log10_base_likelihood=-8.25102	log10_qual_likelihood_position_model=1.60817	log10_strand_likelihood_position_model=0.299202	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.81526e-08	ref_cov=115/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/118
RA	223	.	NC_007779	1595962	1	.	C	bias_e_value=3774360	bias_p_value=0.812331	fisher_strand_p_value=1	frequency=9.614944e-03	genotype_quality=1016.4	ks_quality_p_value=0.45378	log10_base_likelihood=-8.34814	log10_qual_likelihood_position_model=1.32313	log10_strand_likelihood_position_model=0.315303	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.18025e-08	ref_cov=123/83	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/84
RA	224	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=968.9	new_cov=117/129	quality=968.9	ref_cov=0/0	tot_cov=117/129
RA	225	.	NC_007779	1628027	0	G	T	bias_e_value=1.18038	bias_p_value=2.54046e-07	fisher_strand_p_value=1.39977e-08	frequency=1.484008e-01	genotype_quality=368.4	ks_quality_p_value=0.948355	log10_base_likelihood=-23.611	log10_qual_likelihood_position_model=19.682	log10_strand_likelihood_position_model=7.85394	new_cov=19/0	polymorphism_quality=18.4	quality=18.4	quality_position_model=Inf	ref_cov=32/66	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=52/66
RA	226	.	NC_007779	1641154	1	.	T	bias_e_value=2047890	bias_p_value=0.440754	fisher_strand_p_value=0.230477	frequency=8.368492e-03	genotype_quality=1191.7	ks_quality_p_value=0.665053	log10_base_likelihood=-8.30866	log10_qual_likelihood_position_model=1.38465	log10_strand_likelihood_position_model=0.637372	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=3.22379e-08	ref_cov=124/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/115
RA	227	.	NC_007779	1641155	0	T	.	bias_e_value=1616720	bias_p_value=0.347956	fisher_strand_p_value=0.112906	frequency=1.243973e-02	genotype_quality=983.3	ks_quality_p_value=0.954917	log10_base_likelihood=-8.32169	log10_qual_likelihood_position_model=2.31248	log10_strand_likelihood_position_model=0.947284	new_cov=0/3	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.98494e-07	ref_cov=124/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/117
RA	228	.	NC_007779	1647535	0	C	A	bias_e_value=6.51371	bias_p_value=1.4019e-06	fisher_strand_p_value=8.0894e-08	frequency=5.131769e-02	genotype_quality=840.8	ks_quality_p_value=1	log10_base_likelihood=-7.88224	log10_qual_likelihood_position_model=16.4422	log10_strand_likelihood_position_model=7.09208	new_cov=21/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=104/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/136
RA	229	.	NC_007779	1651009	0	T	G	bias_e_value=7.9987e-11	bias_p_value=1.72151e-17	fisher_strand_p_value=3.9693e-19	frequency=1.463895e-01	genotype_quality=515.8	ks_quality_p_value=1	log10_base_likelihood=-18.3912	log10_qual_likelihood_position_model=29.2172	log10_strand_likelihood_position_model=18.4013	new_cov=30/0	polymorphism_quality=13.1	quality=13.1	quality_position_model=Inf	ref_cov=20/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=50/106
RA	230	.	NC_007779	1660545	0	G	T	bias_e_value=327.378	bias_p_value=7.04594e-05	fisher_strand_p_value=5.36391e-06	frequency=4.586792e-02	genotype_quality=806.4	ks_quality_p_value=1	log10_base_likelihood=-8.6619	log10_qual_likelihood_position_model=12.8819	log10_strand_likelihood_position_model=5.34359	new_cov=0/18	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=120/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/131
RA	231	.	NC_007779	1669599	0	C	.	frequency=1	genotype_quality=1033.3	new_cov=82/122	quality=1033.3	ref_cov=0/0	tot_cov=82/122
RA	232	.	NC_007779	1669765	0	C	A	bias_e_value=565230	bias_p_value=0.121651	fisher_strand_p_value=0.0266445	frequency=3.082657e-02	genotype_quality=899.2	ks_quality_p_value=0.983633	log10_base_likelihood=-5.84771	log10_qual_likelihood_position_model=13.2648	log10_strand_likelihood_position_model=1.6604	new_cov=0/8	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=83/131	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=83/139
RA	233	.	NC_007779	1677110	0	G	T	bias_e_value=301.65	bias_p_value=6.49221e-05	fisher_strand_p_value=6.66752e-06	frequency=5.511284e-02	genotype_quality=643.2	ks_quality_p_value=0.736296	log10_base_likelihood=-7.09483	log10_qual_likelihood_position_model=23.533	log10_strand_likelihood_position_model=5.20633	new_cov=0/20	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=93/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/123
RA	234	.	NC_007779	1698552	0	G	T	bias_e_value=5213.02	bias_p_value=0.00112197	fisher_strand_p_value=0.000111022	frequency=3.950500e-02	genotype_quality=783.9	ks_quality_p_value=1	log10_base_likelihood=-7.76061	log10_qual_likelihood_position_model=13.9071	log10_strand_likelihood_position_model=3.95459	new_cov=0/12	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=122/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/113
RA	235	.	NC_007779	1705204	0	A	C	bias_e_value=516.394	bias_p_value=0.00011114	fisher_strand_p_value=8.79154e-06	frequency=6.240320e-02	genotype_quality=828.3	ks_quality_p_value=1	log10_base_likelihood=-17.5892	log10_qual_likelihood_position_model=24.6898	log10_strand_likelihood_position_model=5.21258	new_cov=19/0	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=106/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/102
RA	236	.	NC_007779	1705209	1	.	T	bias_e_value=2594570	bias_p_value=0.558413	fisher_strand_p_value=0.246714	frequency=1.415062e-02	genotype_quality=1023.4	ks_quality_p_value=0.905998	log10_base_likelihood=-11.4867	log10_qual_likelihood_position_model=4.63838	log10_strand_likelihood_position_model=0.884724	new_cov=3/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=6.95303e-08	ref_cov=105/104	reject=POLYMORPHISM_STRAND	tot_cov=108/104
RA	237	.	NC_007779	1705210	0	G	T	bias_e_value=28464.2	bias_p_value=0.00612616	fisher_strand_p_value=0.000747164	frequency=4.862070e-02	genotype_quality=823.5	ks_quality_p_value=1	log10_base_likelihood=-14.827	log10_qual_likelihood_position_model=15.1646	log10_strand_likelihood_position_model=3.40491	new_cov=11/0	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=97/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/107
RA	238	.	NC_007779	1705224	0	G	T	bias_e_value=54609.8	bias_p_value=0.0117533	fisher_strand_p_value=0.00157718	frequency=3.120041e-02	genotype_quality=858.8	ks_quality_p_value=1	log10_base_likelihood=-5.92425	log10_qual_likelihood_position_model=12.7687	log10_strand_likelihood_position_model=3.06318	new_cov=10/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=99/107	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=109/107
RA	239	.	NC_007779	1734360	0	A	.	bias_e_value=2159150	bias_p_value=0.4647	fisher_strand_p_value=0.248445	frequency=1.204109e-02	genotype_quality=1023.9	ks_quality_p_value=0.669506	log10_base_likelihood=-8.39146	log10_qual_likelihood_position_model=1.52119	log10_strand_likelihood_position_model=0.851605	new_cov=0/3	polymorphism_quality=2.9	quality=2.9	quality_position_model=6.09865e-08	ref_cov=119/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/130
RA	240	.	NC_007779	1759411	1	.	T	bias_e_value=3867290	bias_p_value=0.832332	fisher_strand_p_value=0.498416	frequency=8.771896e-03	genotype_quality=1130.5	ks_quality_p_value=0.963125	log10_base_likelihood=-8.32316	log10_qual_likelihood_position_model=1.7825	log10_strand_likelihood_position_model=0.573893	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=6.9007e-08	ref_cov=116/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/110
RA	241	.	NC_007779	1759412	0	T	.	bias_e_value=2220740	bias_p_value=0.477955	fisher_strand_p_value=0.610977	frequency=1.270485e-02	genotype_quality=946.6	ks_quality_p_value=0.284492	log10_base_likelihood=-8.52043	log10_qual_likelihood_position_model=1.67623	log10_strand_likelihood_position_model=0.439731	new_cov=1/2	polymorphism_quality=3.0	quality=3.0	quality_position_model=2.43639e-08	ref_cov=121/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/114
RA	242	.	NC_007779	1763744	0	C	A	bias_e_value=0.0199432	bias_p_value=4.29225e-09	fisher_strand_p_value=1.83273e-10	frequency=8.101177e-02	genotype_quality=759.2	ks_quality_p_value=1	log10_base_likelihood=-18.7586	log10_qual_likelihood_position_model=20.1122	log10_strand_likelihood_position_model=9.7369	new_cov=26/0	polymorphism_quality=13.5	quality=13.5	quality_position_model=Inf	ref_cov=87/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/137
RA	243	.	NC_007779	1766507	0	A	C	bias_e_value=0.0104121	bias_p_value=2.24093e-09	fisher_strand_p_value=9.29904e-11	frequency=7.756662e-02	genotype_quality=546.0	ks_quality_p_value=1	log10_base_likelihood=-6.69471	log10_qual_likelihood_position_model=20.1592	log10_strand_likelihood_position_model=10.0316	new_cov=0/24	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=97/48	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/72
RA	244	.	NC_007779	1820099	0	A	C	bias_e_value=0.136215	bias_p_value=2.93166e-08	fisher_strand_p_value=1.36936e-09	frequency=6.422472e-02	genotype_quality=812.6	ks_quality_p_value=1	log10_base_likelihood=-9.88233	log10_qual_likelihood_position_model=20.6187	log10_strand_likelihood_position_model=8.86348	new_cov=0/22	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=144/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/106
RA	245	.	NC_007779	1823573	1	.	A	bias_e_value=4244120	bias_p_value=0.913435	fisher_strand_p_value=1	frequency=1.149464e-02	genotype_quality=1268.2	ks_quality_p_value=0.613898	log10_base_likelihood=-12.9688	log10_qual_likelihood_position_model=2.48558	log10_strand_likelihood_position_model=0.395864	new_cov=2/1	polymorphism_quality=7.6	quality=7.6	quality_position_model=4.07345e-12	ref_cov=138/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/121
RA	246	.	NC_007779	1832491	0	G	T	bias_e_value=17.6987	bias_p_value=3.80918e-06	fisher_strand_p_value=2.34358e-07	frequency=4.928493e-02	genotype_quality=785.1	ks_quality_p_value=0.999167	log10_base_likelihood=-5.80424	log10_qual_likelihood_position_model=18.9655	log10_strand_likelihood_position_model=6.69613	new_cov=0/22	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=116/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/125
RA	247	.	NC_007779	1840899	0	G	T	bias_e_value=458.991	bias_p_value=9.87858e-05	fisher_strand_p_value=7.73599e-06	frequency=4.806566e-02	genotype_quality=723.9	ks_quality_p_value=1	log10_base_likelihood=-8.8142	log10_qual_likelihood_position_model=13.8285	log10_strand_likelihood_position_model=5.11148	new_cov=0/15	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=119/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/108
RA	248	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=997.2	new_cov=126/113	quality=997.2	ref_cov=0/0	tot_cov=126/113
RA	249	.	NC_007779	1861399	0	A	C	bias_e_value=1.00566e-09	bias_p_value=2.16441e-16	fisher_strand_p_value=5.30788e-18	frequency=7.922554e-02	genotype_quality=664.4	ks_quality_p_value=1	log10_base_likelihood=-12.2297	log10_qual_likelihood_position_model=27.6956	log10_strand_likelihood_position_model=17.2751	new_cov=0/28	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=140/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/59
RA	250	.	NC_007779	1875903	0	C	.	bias_e_value=1591550	bias_p_value=0.34254	fisher_strand_p_value=1	frequency=7.658958e-03	genotype_quality=1122.5	ks_quality_p_value=0.105396	log10_base_likelihood=-5.80705	log10_qual_likelihood_position_model=1.19916	log10_strand_likelihood_position_model=0.304036	new_cov=1/1	polymorphism_quality=0.3	quality=0.3	quality_position_model=3.69533e-06	ref_cov=116/143	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/144
RA	251	.	NC_007779	1906475	1	.	C	bias_e_value=2045930	bias_p_value=0.440333	fisher_strand_p_value=0.242462	frequency=8.658409e-03	genotype_quality=1136.0	ks_quality_p_value=0.631254	log10_base_likelihood=-8.7228	log10_qual_likelihood_position_model=1.51582	log10_strand_likelihood_position_model=0.615357	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.56207e-08	ref_cov=112/117	reject=POLYMORPHISM_STRAND	tot_cov=114/117
RA	252	.	NC_007779	1906477	1	.	G	bias_e_value=1513630	bias_p_value=0.325768	fisher_strand_p_value=0.0985419	frequency=1.850986e-02	genotype_quality=1011.5	ks_quality_p_value=0.99509	log10_base_likelihood=-11.0531	log10_qual_likelihood_position_model=3.85404	log10_strand_likelihood_position_model=1.00638	new_cov=3/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=4.03092e-08	ref_cov=95/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/113
RA	253	.	NC_007779	1906488	0	G	T	bias_e_value=124.014	bias_p_value=2.66908e-05	fisher_strand_p_value=1.88185e-06	frequency=5.692387e-02	genotype_quality=741.8	ks_quality_p_value=1	log10_base_likelihood=-11.705	log10_qual_likelihood_position_model=13.8299	log10_strand_likelihood_position_model=5.72541	new_cov=14/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=70/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=84/121
RA	254	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=958.1	new_cov=126/112	quality=958.1	ref_cov=0/0	tot_cov=126/112
RA	255	.	NC_007779	1920746	0	G	T	bias_e_value=0.11515	bias_p_value=2.4783e-08	fisher_strand_p_value=1.14815e-09	frequency=6.399441e-02	genotype_quality=719.5	ks_quality_p_value=1	log10_base_likelihood=-8.10233	log10_qual_likelihood_position_model=16.3278	log10_strand_likelihood_position_model=8.94	new_cov=0/24	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=121/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/101
RA	256	.	NC_007779	1971508	0	A	C	bias_e_value=2.99293e-08	bias_p_value=6.4415e-15	fisher_strand_p_value=1.73111e-16	frequency=1.270161e-01	genotype_quality=490.4	ks_quality_p_value=0.997728	log10_base_likelihood=-26.2253	log10_qual_likelihood_position_model=20.957	log10_strand_likelihood_position_model=15.7617	new_cov=0/20	polymorphism_quality=21.0	quality=21.0	quality_position_model=Inf	ref_cov=111/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/32
RA	257	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=760.1	new_cov=81/104	quality=760.1	ref_cov=0/0	tot_cov=81/104
RA	258	.	NC_007779	1993894	0	A	C	bias_e_value=122164	bias_p_value=0.0262925	fisher_strand_p_value=0.00403746	frequency=2.715302e-02	genotype_quality=837.2	ks_quality_p_value=1	log10_base_likelihood=-6.84806	log10_qual_likelihood_position_model=13.0278	log10_strand_likelihood_position_model=2.44782	new_cov=0/11	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=95/136	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=95/147
RA	259	.	NC_007779	2004055	0	A	C	bias_e_value=1.55127e-24	bias_p_value=3.33869e-31	fisher_strand_p_value=4.42219e-33	frequency=2.114158e-01	genotype_quality=675.8	ks_quality_p_value=1	log10_base_likelihood=-48.5024	log10_qual_likelihood_position_model=48.3866	log10_strand_likelihood_position_model=32.3544	new_cov=0/68	polymorphism_quality=43.4	quality=43.4	quality_position_model=Inf	ref_cov=139/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/107
RA	260	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=1066.0	new_cov=129/126	quality=1066.0	ref_cov=0/0	tot_cov=129/126
RA	261	.	NC_007779	2014008	0	T	.	bias_e_value=2671130	bias_p_value=0.57489	fisher_strand_p_value=0.249289	frequency=1.421261e-02	genotype_quality=872.9	ks_quality_p_value=0.941492	log10_base_likelihood=-8.90245	log10_qual_likelihood_position_model=2.06648	log10_strand_likelihood_position_model=0.830714	new_cov=0/3	polymorphism_quality=3.4	quality=3.4	quality_position_model=6.29637e-08	ref_cov=99/109	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/112
RA	262	.	NC_007779	2023811	0	C	A	bias_e_value=1359.85	bias_p_value=0.000292673	fisher_strand_p_value=2.52603e-05	frequency=3.238964e-02	genotype_quality=856.4	ks_quality_p_value=1	log10_base_likelihood=-6.28571	log10_qual_likelihood_position_model=15.6014	log10_strand_likelihood_position_model=4.6717	new_cov=16/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=122/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/125
RA	263	.	NC_007779	2027359	0	T	A	bias_e_value=351600	bias_p_value=0.0756726	fisher_strand_p_value=0.0144493	frequency=2.401543e-02	genotype_quality=1024.9	ks_quality_p_value=1	log10_base_likelihood=-6.33965	log10_qual_likelihood_position_model=11.462	log10_strand_likelihood_position_model=2.09559	new_cov=0/7	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=127/124	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=127/131
RA	264	.	NC_007779	2032185	0	G	C	bias_e_value=73.0748	bias_p_value=1.57274e-05	fisher_strand_p_value=1.06702e-06	frequency=4.450703e-02	genotype_quality=493.0	ks_quality_p_value=0.999194	log10_base_likelihood=-9.06268	log10_qual_likelihood_position_model=7.0869	log10_strand_likelihood_position_model=5.97183	new_cov=6/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=9/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=15/110
RA	265	.	NC_007779	2047442	0	A	.	bias_e_value=4060630	bias_p_value=0.873943	fisher_strand_p_value=0.586707	frequency=1.223755e-02	genotype_quality=999.9	ks_quality_p_value=0.923727	log10_base_likelihood=-8.33266	log10_qual_likelihood_position_model=1.7528	log10_strand_likelihood_position_model=0.480652	new_cov=1/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=5.03474e-08	ref_cov=135/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=136/109
RA	266	.	NC_007779	2065611	0	C	A	bias_e_value=207.27	bias_p_value=4.46095e-05	fisher_strand_p_value=3.27293e-06	frequency=5.539894e-02	genotype_quality=812.2	ks_quality_p_value=1	log10_base_likelihood=-9.90937	log10_qual_likelihood_position_model=16.2088	log10_strand_likelihood_position_model=5.51865	new_cov=19/0	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=111/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/115
RA	267	.	NC_007779	2081843	0	C	A	bias_e_value=8068.99	bias_p_value=0.00173664	fisher_strand_p_value=0.000181009	frequency=2.585316e-02	genotype_quality=977.2	ks_quality_p_value=0.99736	log10_base_likelihood=-6.31628	log10_qual_likelihood_position_model=9.99537	log10_strand_likelihood_position_model=3.7423	new_cov=10/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=105/151	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/151
RA	268	.	NC_007779	2082881	0	A	.	bias_e_value=4612450	bias_p_value=0.992707	fisher_strand_p_value=1	frequency=1.320839e-02	genotype_quality=934.7	ks_quality_p_value=0.881687	log10_base_likelihood=-8.46665	log10_qual_likelihood_position_model=1.69166	log10_strand_likelihood_position_model=0.404343	new_cov=1/2	polymorphism_quality=3.0	quality=3.0	quality_position_model=2.64024e-08	ref_cov=107/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/119
RA	269	.	NC_007779	2095582	0	G	T	bias_e_value=0.0173064	bias_p_value=3.72473e-09	fisher_strand_p_value=1.58041e-10	frequency=1.046643e-01	genotype_quality=769.2	ks_quality_p_value=1	log10_base_likelihood=-22.4169	log10_qual_likelihood_position_model=19.6137	log10_strand_likelihood_position_model=9.81733	new_cov=0/34	polymorphism_quality=17.2	quality=17.2	quality_position_model=Inf	ref_cov=117/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/141
RA	270	.	NC_007779	2101940	1	.	A	bias_e_value=4514710	bias_p_value=0.971672	fisher_strand_p_value=1	frequency=9.131432e-03	genotype_quality=1094.5	ks_quality_p_value=0.771619	log10_base_likelihood=-7.43827	log10_qual_likelihood_position_model=2.64548	log10_strand_likelihood_position_model=0.336557	new_cov=1/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=2.56053e-06	ref_cov=140/77	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/78
RA	271	.	NC_007779	2107010	1	.	A	bias_e_value=2775150	bias_p_value=0.597277	fisher_strand_p_value=0.605986	frequency=1.428604e-02	genotype_quality=1020.9	ks_quality_p_value=0.413388	log10_base_likelihood=-13.1468	log10_qual_likelihood_position_model=1.90674	log10_strand_likelihood_position_model=0.44628	new_cov=1/2	polymorphism_quality=7.8	quality=7.8	quality_position_model=7.75166e-13	ref_cov=109/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/100
RA	272	.	NC_007779	2156661	0	C	A	bias_e_value=10.7086	bias_p_value=2.30474e-06	fisher_strand_p_value=1.3732e-07	frequency=7.939243e-02	genotype_quality=699.3	ks_quality_p_value=0.99891	log10_base_likelihood=-15.171	log10_qual_likelihood_position_model=19.2744	log10_strand_likelihood_position_model=6.96263	new_cov=28/0	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=114/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/99
RA	273	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=1016.3	new_cov=93/150	quality=1016.3	ref_cov=0/0	tot_cov=93/150
RA	274	.	NC_007779	2199432	0	G	C	bias_e_value=0.655291	bias_p_value=1.41034e-07	fisher_strand_p_value=7.13814e-09	frequency=4.505444e-02	genotype_quality=727.8	ks_quality_p_value=1	log10_base_likelihood=-8.15517	log10_qual_likelihood_position_model=14.7008	log10_strand_likelihood_position_model=8.14641	new_cov=0/10	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=151/22	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/32
RA	275	.	NC_007779	2212417	0	G	T	bias_e_value=3027.12	bias_p_value=0.000651508	fisher_strand_p_value=6.0848e-05	frequency=2.787304e-02	genotype_quality=630.0	ks_quality_p_value=1	log10_base_likelihood=-6.67815	log10_qual_likelihood_position_model=7.765	log10_strand_likelihood_position_model=4.21575	new_cov=5/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=19/131	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=24/131
RA	276	.	NC_007779	2213136	0	G	T	bias_e_value=1.42399	bias_p_value=3.06477e-07	fisher_strand_p_value=1.6182e-08	frequency=1.142111e-01	genotype_quality=567.1	ks_quality_p_value=1	log10_base_likelihood=-33.5494	log10_qual_likelihood_position_model=20.5639	log10_strand_likelihood_position_model=7.79997	new_cov=19/1	polymorphism_quality=28.4	quality=28.4	quality_position_model=4.45185e-07	ref_cov=44/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/105
RA	277	.	NC_007779	2222886	0	T	G	bias_e_value=836.181	bias_p_value=0.000179966	fisher_strand_p_value=1.48519e-05	frequency=3.483200e-02	genotype_quality=602.4	ks_quality_p_value=1	log10_base_likelihood=-6.45161	log10_qual_likelihood_position_model=10.772	log10_strand_likelihood_position_model=4.83465	new_cov=6/1	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=14/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=20/134
RA	278	.	NC_007779	2249963	0	T	G	bias_e_value=3.13678e-06	bias_p_value=6.75109e-13	fisher_strand_p_value=2.07692e-14	frequency=1.288762e-01	genotype_quality=641.8	ks_quality_p_value=1	log10_base_likelihood=-20.2793	log10_qual_likelihood_position_model=33.0654	log10_strand_likelihood_position_model=13.6826	new_cov=38/0	polymorphism_quality=15.0	quality=15.0	quality_position_model=Inf	ref_cov=69/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/114
RA	279	.	NC_007779	2266892	0	G	T	bias_e_value=36.6739	bias_p_value=7.89309e-06	fisher_strand_p_value=5.0957e-07	frequency=4.519176e-02	genotype_quality=815.5	ks_quality_p_value=1	log10_base_likelihood=-7.86754	log10_qual_likelihood_position_model=13.7098	log10_strand_likelihood_position_model=6.2928	new_cov=0/18	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=129/95	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/113
RA	280	.	NC_007779	2271592	0	G	T	bias_e_value=523.455	bias_p_value=0.00011266	fisher_strand_p_value=8.92216e-06	frequency=4.607487e-02	genotype_quality=856.1	ks_quality_p_value=1	log10_base_likelihood=-5.68764	log10_qual_likelihood_position_model=17.2539	log10_strand_likelihood_position_model=5.25152	new_cov=1/18	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=123/91	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/109
RA	281	.	NC_007779	2278635	0	C	A	bias_e_value=0.0384107	bias_p_value=8.26689e-09	fisher_strand_p_value=3.63621e-10	frequency=7.645226e-02	genotype_quality=712.8	ks_quality_p_value=1	log10_base_likelihood=-10.8125	log10_qual_likelihood_position_model=23.6706	log10_strand_likelihood_position_model=9.43935	new_cov=28/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=84/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/115
RA	282	.	NC_007779	2331120	0	T	G	bias_e_value=2.29568e-18	bias_p_value=4.94084e-25	fisher_strand_p_value=8.08922e-27	frequency=1.337395e-01	genotype_quality=808.8	ks_quality_p_value=1	log10_base_likelihood=-21.5039	log10_qual_likelihood_position_model=40.432	log10_strand_likelihood_position_model=26.0921	new_cov=59/0	polymorphism_quality=16.2	quality=16.2	quality_position_model=Inf	ref_cov=61/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/157
RA	283	.	NC_007779	2332580	0	A	C	bias_e_value=8.90037e-11	bias_p_value=1.91557e-17	fisher_strand_p_value=4.42792e-19	frequency=1.239061e-01	genotype_quality=637.6	ks_quality_p_value=1	log10_base_likelihood=-11.1909	log10_qual_likelihood_position_model=28.8491	log10_strand_likelihood_position_model=18.3538	new_cov=0/48	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=117/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/108
RA	284	.	NC_007779	2353815	0	A	C	bias_e_value=3.71233e-06	bias_p_value=7.98981e-13	fisher_strand_p_value=2.47122e-14	frequency=9.455442e-02	genotype_quality=631.1	ks_quality_p_value=1	log10_base_likelihood=-15.7023	log10_qual_likelihood_position_model=23.3902	log10_strand_likelihood_position_model=13.6071	new_cov=0/24	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=126/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/59
RA	285	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=997.0	new_cov=122/122	quality=997.0	ref_cov=0/0	tot_cov=122/122
RA	286	.	NC_007779	2409404	0	A	C	bias_e_value=2.00762	bias_p_value=4.32087e-07	fisher_strand_p_value=2.32598e-08	frequency=6.423903e-02	genotype_quality=755.6	ks_quality_p_value=1	log10_base_likelihood=-10.3342	log10_qual_likelihood_position_model=19.4292	log10_strand_likelihood_position_model=7.63339	new_cov=0/19	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=129/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/95
RA	287	.	NC_007779	2410289	1	.	A	bias_e_value=3068800	bias_p_value=0.660479	fisher_strand_p_value=0.501001	frequency=8.928299e-03	genotype_quality=1092.8	ks_quality_p_value=0.59762	log10_base_likelihood=-8.31782	log10_qual_likelihood_position_model=1.97264	log10_strand_likelihood_position_model=0.536586	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.00585e-07	ref_cov=119/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/103
RA	288	.	NC_007779	2410316	0	A	C	bias_e_value=2.51359	bias_p_value=5.40984e-07	fisher_strand_p_value=2.94993e-08	frequency=5.162239e-02	genotype_quality=781.0	ks_quality_p_value=1	log10_base_likelihood=-10.3535	log10_qual_likelihood_position_model=19.6148	log10_strand_likelihood_position_model=7.53019	new_cov=0/21	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=128/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=128/111
RA	289	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=1043.0	new_cov=111/147	quality=1043.0	ref_cov=0/0	tot_cov=111/147
RA	290	.	NC_007779	2417605	0	C	A	bias_e_value=0.0223481	bias_p_value=4.80984e-09	fisher_strand_p_value=3.84994e-10	frequency=1.005926e-01	genotype_quality=683.2	ks_quality_p_value=0.536168	log10_base_likelihood=-14.0412	log10_qual_likelihood_position_model=33.9334	log10_strand_likelihood_position_model=9.45886	new_cov=34/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=99/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/105
RA	291	.	NC_007779	2418070	1	.	A	bias_e_value=3220570	bias_p_value=0.693142	fisher_strand_p_value=0.50426	frequency=7.352829e-03	genotype_quality=1370.5	ks_quality_p_value=0.649581	log10_base_likelihood=-7.62839	log10_qual_likelihood_position_model=2.41729	log10_strand_likelihood_position_model=0.51247	new_cov=0/2	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.42998e-06	ref_cov=121/149	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/151
RA	292	.	NC_007779	2418805	1	.	A	bias_e_value=2119810	bias_p_value=0.456233	fisher_strand_p_value=0.163338	frequency=9.216309e-03	genotype_quality=1092.3	ks_quality_p_value=0.98968	log10_base_likelihood=-8.19546	log10_qual_likelihood_position_model=1.81358	log10_strand_likelihood_position_model=0.786912	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.67404e-07	ref_cov=129/86	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/88
RA	293	.	NC_007779	2426889	0	A	C	bias_e_value=0.00958741	bias_p_value=2.06344e-09	fisher_strand_p_value=8.53202e-11	frequency=3.556442e-02	genotype_quality=616.6	ks_quality_p_value=1	log10_base_likelihood=-6.12543	log10_qual_likelihood_position_model=13.0482	log10_strand_likelihood_position_model=10.0689	new_cov=0/9	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=142/7	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/16
RA	294	.	NC_007779	2468326	1	.	C	bias_e_value=2080010	bias_p_value=0.447668	fisher_strand_p_value=0.50494	frequency=8.474350e-03	genotype_quality=1128.4	ks_quality_p_value=0.310907	log10_base_likelihood=-8.18235	log10_qual_likelihood_position_model=1.96583	log10_strand_likelihood_position_model=0.506135	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.27117e-07	ref_cov=104/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/132
RA	295	.	NC_007779	2468327	0	C	.	bias_e_value=3972020	bias_p_value=0.854871	fisher_strand_p_value=0.695508	frequency=2.489090e-02	genotype_quality=1010.6	ks_quality_p_value=0.736417	log10_base_likelihood=-19.2827	log10_qual_likelihood_position_model=2.36117	log10_strand_likelihood_position_model=0.545281	new_cov=2/4	polymorphism_quality=14.0	quality=14.0	quality_position_model=1.65641e-18	ref_cov=105/130	reject=INDEL_HOMOPOLYMER	tot_cov=107/134
RA	296	.	NC_007779	2475172	0	T	.	bias_e_value=1134070	bias_p_value=0.244078	fisher_strand_p_value=0.085628	frequency=1.960182e-02	genotype_quality=630.8	ks_quality_p_value=0.765128	log10_base_likelihood=-9.19739	log10_qual_likelihood_position_model=1.4147	log10_strand_likelihood_position_model=1.06738	new_cov=0/3	polymorphism_quality=3.7	quality=3.7	quality_position_model=1.16467e-08	ref_cov=85/65	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=85/68
RA	297	.	NC_007779	2476279	0	C	G	bias_e_value=361577	bias_p_value=0.0778199	fisher_strand_p_value=0.0149633	frequency=2.612114e-02	genotype_quality=847.0	ks_quality_p_value=0.999655	log10_base_likelihood=-7.8778	log10_qual_likelihood_position_model=9.60237	log10_strand_likelihood_position_model=1.98954	new_cov=0/7	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=97/101	reject=POLYMORPHISM_STRAND	tot_cov=97/108
RA	298	.	NC_007779	2478675	0	C	A	bias_e_value=0.258925	bias_p_value=5.57268e-08	fisher_strand_p_value=2.68762e-09	frequency=8.192205e-02	genotype_quality=701.8	ks_quality_p_value=1	log10_base_likelihood=-13.0158	log10_qual_likelihood_position_model=17.9639	log10_strand_likelihood_position_model=8.81793	new_cov=27/0	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=89/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/116
RA	299	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=1074.1	new_cov=124/136	quality=1074.1	ref_cov=0/0	tot_cov=124/136
RA	300	.	NC_007779	2556426	0	G	T	bias_e_value=0.129112	bias_p_value=2.7788e-08	fisher_strand_p_value=2.55303e-09	frequency=6.984472e-02	genotype_quality=858.9	ks_quality_p_value=0.507072	log10_base_likelihood=-14.7584	log10_qual_likelihood_position_model=27.5418	log10_strand_likelihood_position_model=8.69671	new_cov=0/30	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=133/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/155
RA	301	.	NC_007779	2601998	0	A	C	bias_e_value=7.9854e-07	bias_p_value=1.71865e-13	fisher_strand_p_value=5.06737e-15	frequency=8.822203e-02	genotype_quality=674.5	ks_quality_p_value=1	log10_base_likelihood=-21.9356	log10_qual_likelihood_position_model=22.6394	log10_strand_likelihood_position_model=14.2952	new_cov=0/18	polymorphism_quality=16.7	quality=16.7	quality_position_model=Inf	ref_cov=146/19	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/37
RA	302	.	NC_007779	2618856	1	.	A	bias_e_value=1392540	bias_p_value=0.299707	fisher_strand_p_value=0.54061	frequency=8.849144e-03	genotype_quality=1131.9	ks_quality_p_value=0.161131	log10_base_likelihood=-8.39676	log10_qual_likelihood_position_model=1.72042	log10_strand_likelihood_position_model=0.38057	new_cov=0/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.15455e-08	ref_cov=80/144	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=80/146
RA	303	.	NC_007779	2618857	0	A	.	bias_e_value=1762840	bias_p_value=0.379404	fisher_strand_p_value=0.126785	frequency=1.761436e-02	genotype_quality=938.5	ks_quality_p_value=0.965066	log10_base_likelihood=-11.998	log10_qual_likelihood_position_model=2.05954	log10_strand_likelihood_position_model=0.950376	new_cov=3/1	polymorphism_quality=6.6	quality=6.6	quality_position_model=5.41073e-11	ref_cov=77/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=80/147
RA	304	.	NC_007779	2623159	0	T	G	bias_e_value=9.8939e-18	bias_p_value=2.1294e-24	fisher_strand_p_value=3.57319e-26	frequency=1.662807e-01	genotype_quality=687.2	ks_quality_p_value=1	log10_base_likelihood=-24.8023	log10_qual_likelihood_position_model=38.7137	log10_strand_likelihood_position_model=25.4469	new_cov=56/0	polymorphism_quality=19.6	quality=19.6	quality_position_model=Inf	ref_cov=47/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/135
RA	305	.	NC_007779	2623173	0	G	T	bias_e_value=924.229	bias_p_value=0.000198916	fisher_strand_p_value=1.66414e-05	frequency=4.191494e-02	genotype_quality=804.5	ks_quality_p_value=0.995405	log10_base_likelihood=-7.38024	log10_qual_likelihood_position_model=9.80007	log10_strand_likelihood_position_model=4.77881	new_cov=13/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=90/129	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/129
RA	306	.	NC_007779	2648595	0	A	C	bias_e_value=0.00076349	bias_p_value=1.64321e-10	fisher_strand_p_value=6.12721e-12	frequency=6.076527e-02	genotype_quality=572.9	ks_quality_p_value=1	log10_base_likelihood=-7.72795	log10_qual_likelihood_position_model=16.5656	log10_strand_likelihood_position_model=11.2127	new_cov=0/12	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=130/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/23
RA	307	.	NC_007779	2676695	0	T	G	bias_e_value=7.78727e-09	bias_p_value=1.676e-15	fisher_strand_p_value=4.33327e-17	frequency=1.003447e-01	genotype_quality=619.4	ks_quality_p_value=1	log10_base_likelihood=-7.16979	log10_qual_likelihood_position_model=39.3465	log10_strand_likelihood_position_model=16.3632	new_cov=37/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=45/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/111
RA	308	.	NC_007779	2756639	0	T	.	bias_e_value=3096130	bias_p_value=0.66636	fisher_strand_p_value=0.506889	frequency=1.014709e-02	genotype_quality=814.8	ks_quality_p_value=0.600365	log10_base_likelihood=-5.69562	log10_qual_likelihood_position_model=1.37721	log10_strand_likelihood_position_model=0.492181	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=1.17119e-05	ref_cov=85/110	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=85/112
RA	309	.	NC_007779	2771144	0	G	T	bias_e_value=783.42	bias_p_value=0.00016861	fisher_strand_p_value=1.49383e-05	frequency=4.311848e-02	genotype_quality=716.3	ks_quality_p_value=0.926052	log10_base_likelihood=-6.53072	log10_qual_likelihood_position_model=15.1149	log10_strand_likelihood_position_model=4.8257	new_cov=0/15	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=114/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/111
RA	310	.	NC_007779	2791635	0	C	T	bias_e_value=0.0392889	bias_p_value=8.4559e-09	fisher_strand_p_value=3.72322e-10	frequency=8.543205e-02	genotype_quality=576.2	ks_quality_p_value=1	log10_base_likelihood=-11.632	log10_qual_likelihood_position_model=15.8942	log10_strand_likelihood_position_model=9.42908	new_cov=0/20	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=112/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/67
RA	311	.	NC_007779	2816615	0	G	C	bias_e_value=1.80387	bias_p_value=3.88235e-07	fisher_strand_p_value=2.28173e-08	frequency=6.904745e-02	genotype_quality=667.8	ks_quality_p_value=0.910396	log10_base_likelihood=-13.8636	log10_qual_likelihood_position_model=21.0268	log10_strand_likelihood_position_model=7.64174	new_cov=17/0	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=59/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=76/123
RA	312	.	NC_007779	2817030	0	G	C	bias_e_value=1.74971e-07	bias_p_value=3.7658e-14	fisher_strand_p_value=1.30734e-15	frequency=1.138563e-01	genotype_quality=665.6	ks_quality_p_value=0.811883	log10_base_likelihood=-26.86	log10_qual_likelihood_position_model=31.2827	log10_strand_likelihood_position_model=14.8836	new_cov=26/0	polymorphism_quality=21.6	quality=21.6	quality_position_model=Inf	ref_cov=38/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=64/140
RA	313	.	NC_007779	2833989	0	A	C	bias_e_value=7.55446e-09	bias_p_value=1.6259e-15	fisher_strand_p_value=4.20033e-17	frequency=7.853508e-02	genotype_quality=696.4	ks_quality_p_value=1	log10_base_likelihood=-10.0775	log10_qual_likelihood_position_model=27.2513	log10_strand_likelihood_position_model=16.3767	new_cov=0/26	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=146/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/58
RA	314	.	NC_007779	2841245	0	G	A	bias_e_value=4078810	bias_p_value=0.877856	fisher_strand_p_value=0.622587	frequency=1.464081e-02	genotype_quality=1145.5	ks_quality_p_value=0.880852	log10_base_likelihood=-7.64621	log10_qual_likelihood_position_model=2.31522	log10_strand_likelihood_position_model=0.583128	new_cov=3/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.2706e-06	ref_cov=136/132	reject=POLYMORPHISM_STRAND	tot_cov=139/133
RA	315	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=1156.6	new_cov=117/146	quality=1156.6	ref_cov=0/0	tot_cov=117/146
RA	316	.	NC_007779	2877319	0	G	A	bias_e_value=2250780	bias_p_value=0.484421	fisher_strand_p_value=0.618679	frequency=1.009083e-02	genotype_quality=1270.0	ks_quality_p_value=0.286959	log10_base_likelihood=-5.73121	log10_qual_likelihood_position_model=1.44851	log10_strand_likelihood_position_model=0.430528	new_cov=2/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.0999e-05	ref_cov=144/149	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=146/150
RA	317	.	NC_007779	2895131	0	A	C	bias_e_value=1.87002e-10	bias_p_value=4.02472e-17	fisher_strand_p_value=9.46969e-19	frequency=1.091537e-01	genotype_quality=648.8	ks_quality_p_value=1	log10_base_likelihood=-14.8824	log10_qual_likelihood_position_model=36.2891	log10_strand_likelihood_position_model=18.0237	new_cov=0/33	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=128/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/68
RA	318	.	NC_007779	2898837	0	G	T	bias_e_value=0.172816	bias_p_value=3.7194e-08	fisher_strand_p_value=1.75782e-09	frequency=4.447174e-02	genotype_quality=918.8	ks_quality_p_value=1	log10_base_likelihood=-5.63312	log10_qual_likelihood_position_model=20.3153	log10_strand_likelihood_position_model=8.75503	new_cov=0/24	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=149/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/125
RA	319	.	NC_007779	2898953	1	.	A	bias_e_value=3794930	bias_p_value=0.816758	fisher_strand_p_value=0.507454	frequency=8.968353e-03	genotype_quality=1107.1	ks_quality_p_value=0.905357	log10_base_likelihood=-8.17167	log10_qual_likelihood_position_model=1.09696	log10_strand_likelihood_position_model=0.490484	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.58974e-08	ref_cov=96/125	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=96/127
RA	320	.	NC_007779	2974757	1	.	A	bias_e_value=4457750	bias_p_value=0.959413	fisher_strand_p_value=1	frequency=7.999420e-03	genotype_quality=1250.4	ks_quality_p_value=0.728965	log10_base_likelihood=-8.41303	log10_qual_likelihood_position_model=0.87131	log10_strand_likelihood_position_model=0.30331	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.37054e-09	ref_cov=136/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=137/113
RA	321	.	NC_007779	2974959	1	.	A	bias_e_value=3787440	bias_p_value=0.815145	fisher_strand_p_value=1	frequency=7.936478e-03	genotype_quality=1262.3	ks_quality_p_value=0.457359	log10_base_likelihood=-8.16203	log10_qual_likelihood_position_model=1.99762	log10_strand_likelihood_position_model=0.305502	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=8.92195e-08	ref_cov=140/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/111
RA	322	.	NC_007779	2987535	0	A	C	bias_e_value=0.0111792	bias_p_value=2.40602e-09	fisher_strand_p_value=1.00149e-10	frequency=9.156370e-02	genotype_quality=679.3	ks_quality_p_value=1	log10_base_likelihood=-11.3581	log10_qual_likelihood_position_model=35.4455	log10_strand_likelihood_position_model=10.2344	new_cov=0/35	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=105/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/127
RA	323	.	NC_007779	2994664	0	T	.	bias_e_value=2119360	bias_p_value=0.456137	fisher_strand_p_value=0.215649	frequency=1.135826e-02	genotype_quality=729.1	ks_quality_p_value=0.749363	log10_base_likelihood=-5.74742	log10_qual_likelihood_position_model=0.972677	log10_strand_likelihood_position_model=0.666252	new_cov=0/2	polymorphism_quality=0.2	quality=0.2	quality_position_model=5.91924e-06	ref_cov=94/80	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=94/82
RA	324	.	NC_007779	2999820	0	A	C	bias_e_value=0.0274793	bias_p_value=5.91418e-09	fisher_strand_p_value=2.56191e-10	frequency=5.109310e-02	genotype_quality=535.6	ks_quality_p_value=1	log10_base_likelihood=-6.1246	log10_qual_likelihood_position_model=16.7598	log10_strand_likelihood_position_model=9.59144	new_cov=0/20	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=103/41	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/61
RA	325	.	NC_007779	3002577	0	T	G	bias_e_value=0.193471	bias_p_value=4.16395e-08	fisher_strand_p_value=1.979e-09	frequency=3.936768e-02	genotype_quality=853.4	ks_quality_p_value=1	log10_base_likelihood=-7.40856	log10_qual_likelihood_position_model=21.8849	log10_strand_likelihood_position_model=8.71317	new_cov=25/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=85/145	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/146
RA	326	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=942.3	new_cov=114/112	quality=942.3	ref_cov=0/0	tot_cov=114/112
RA	327	.	NC_007779	3029385	0	C	A	bias_e_value=3.73768	bias_p_value=8.04437e-07	fisher_strand_p_value=4.4893e-08	frequency=4.742670e-02	genotype_quality=717.8	ks_quality_p_value=1	log10_base_likelihood=-12.5313	log10_qual_likelihood_position_model=15.7555	log10_strand_likelihood_position_model=7.34782	new_cov=0/11	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=142/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=143/44
RA	328	.	NC_007779	3034413	0	A	C	bias_e_value=9.34008e-07	bias_p_value=2.0102e-13	fisher_strand_p_value=5.95537e-15	frequency=9.224892e-02	genotype_quality=673.0	ks_quality_p_value=1	log10_base_likelihood=-10.157	log10_qual_likelihood_position_model=27.4346	log10_strand_likelihood_position_model=14.2251	new_cov=0/31	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=128/53	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/85
RA	329	.	NC_007779	3035390	0	T	C	bias_e_value=0.0010089	bias_p_value=2.17139e-10	fisher_strand_p_value=8.18506e-12	frequency=1.123133e-01	genotype_quality=508.4	ks_quality_p_value=1	log10_base_likelihood=-25.1753	log10_qual_likelihood_position_model=18.7958	log10_strand_likelihood_position_model=11.087	new_cov=0/23	polymorphism_quality=19.9	quality=19.9	quality_position_model=Inf	ref_cov=119/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/70
RA	330	.	NC_007779	3044705	1	.	T	bias_e_value=1026950	bias_p_value=0.221025	fisher_strand_p_value=0.0603448	frequency=1.379299e-02	genotype_quality=676.1	ks_quality_p_value=0.948835	log10_base_likelihood=-8.04694	log10_qual_likelihood_position_model=3.41664	log10_strand_likelihood_position_model=1.21936	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.2101e-05	ref_cov=34/109	reject=POLYMORPHISM_STRAND	tot_cov=36/109
RA	331	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=998.2	new_cov=132/110	quality=998.2	ref_cov=0/0	tot_cov=132/110
RA	332	.	NC_007779	3059420	1	.	T	bias_e_value=1720760	bias_p_value=0.370348	fisher_strand_p_value=0.234809	frequency=7.246017e-03	genotype_quality=1387.3	ks_quality_p_value=0.502881	log10_base_likelihood=-8.18613	log10_qual_likelihood_position_model=2.05287	log10_strand_likelihood_position_model=0.629285	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.08011e-07	ref_cov=142/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/134
RA	333	.	NC_007779	3088549	0	G	T	bias_e_value=510.803	bias_p_value=0.000109937	fisher_strand_p_value=8.68822e-06	frequency=6.235123e-02	genotype_quality=783.7	ks_quality_p_value=1	log10_base_likelihood=-12.5735	log10_qual_likelihood_position_model=15.0935	log10_strand_likelihood_position_model=5.34832	new_cov=1/22	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=119/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/136
RA	334	.	NC_007779	3124070	0	G	.	bias_e_value=239144	bias_p_value=0.0514695	fisher_strand_p_value=0.259379	frequency=1.401329e-02	genotype_quality=906.8	ks_quality_p_value=0.0347595	log10_base_likelihood=-8.99777	log10_qual_likelihood_position_model=2.69509	log10_strand_likelihood_position_model=0.747616	new_cov=0/3	polymorphism_quality=3.5	quality=3.5	quality_position_model=1.84131e-07	ref_cov=93/118	reject=POLYMORPHISM_STRAND	tot_cov=93/121
RA	335	.	NC_007779	3124071	0	C	.	bias_e_value=299065	bias_p_value=0.0643659	fisher_strand_p_value=0.25959	frequency=1.414680e-02	genotype_quality=900.4	ks_quality_p_value=0.0456107	log10_base_likelihood=-9.18046	log10_qual_likelihood_position_model=2.45275	log10_strand_likelihood_position_model=0.746227	new_cov=0/3	polymorphism_quality=3.7	quality=3.7	quality_position_model=6.66301e-08	ref_cov=92/117	reject=POLYMORPHISM_STRAND	tot_cov=92/120
RA	336	.	NC_007779	3152854	1	.	A	bias_e_value=1506710	bias_p_value=0.32428	fisher_strand_p_value=0.238505	frequency=7.143021e-03	genotype_quality=1399.2	ks_quality_p_value=0.408454	log10_base_likelihood=-8.77087	log10_qual_likelihood_position_model=1.88416	log10_strand_likelihood_position_model=0.622503	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=3.40042e-08	ref_cov=135/143	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=137/143
RA	337	.	NC_007779	3152855	0	A	.	bias_e_value=1586230	bias_p_value=0.341394	fisher_strand_p_value=0.2477	frequency=1.048183e-02	genotype_quality=1170.4	ks_quality_p_value=0.423445	log10_base_likelihood=-8.14107	log10_qual_likelihood_position_model=1.56001	log10_strand_likelihood_position_model=0.880446	new_cov=0/3	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.30113e-07	ref_cov=140/143	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/146
RA	338	.	NC_007779	3160153	0	G	C	bias_e_value=750.376	bias_p_value=0.000161499	fisher_strand_p_value=1.31993e-05	frequency=3.973961e-02	genotype_quality=641.2	ks_quality_p_value=1	log10_base_likelihood=-9.00374	log10_qual_likelihood_position_model=9.62793	log10_strand_likelihood_position_model=4.87945	new_cov=7/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=28/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/127
RA	339	.	NC_007779	3193538	1	.	A	bias_e_value=4122310	bias_p_value=0.887218	fisher_strand_p_value=0.590757	frequency=1.041698e-02	genotype_quality=1437.4	ks_quality_p_value=0.955341	log10_base_likelihood=-12.712	log10_qual_likelihood_position_model=2.60917	log10_strand_likelihood_position_model=0.473329	new_cov=2/1	polymorphism_quality=7.3	quality=7.3	quality_position_model=1.19536e-11	ref_cov=128/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/158
RA	340	.	NC_007779	3195962	0	G	T	bias_e_value=3.00022	bias_p_value=6.45718e-07	fisher_strand_p_value=3.55735e-08	frequency=9.154701e-02	genotype_quality=728.6	ks_quality_p_value=1	log10_base_likelihood=-18.1731	log10_qual_likelihood_position_model=17.9372	log10_strand_likelihood_position_model=7.59301	new_cov=0/28	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=105/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/135
RA	341	.	NC_007779	3212355	0	G	C	bias_e_value=3576.17	bias_p_value=0.000769676	fisher_strand_p_value=7.50495e-05	frequency=3.256035e-02	genotype_quality=818.0	ks_quality_p_value=0.974576	log10_base_likelihood=-7.0404	log10_qual_likelihood_position_model=14.0753	log10_strand_likelihood_position_model=4.12465	new_cov=10/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=81/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=92/137
RA	342	.	NC_007779	3216583	0	T	G	bias_e_value=1815060	bias_p_value=0.390643	fisher_strand_p_value=0.127821	frequency=1.489258e-02	genotype_quality=1065.4	ks_quality_p_value=0.999537	log10_base_likelihood=-7.10941	log10_qual_likelihood_position_model=5.69224	log10_strand_likelihood_position_model=1.0679	new_cov=0/4	polymorphism_quality=1.6	quality=1.6	quality_position_model=0.0994732	ref_cov=121/140	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=121/145
RA	343	.	NC_007779	3216584	0	G	C	bias_e_value=572514	bias_p_value=0.123219	fisher_strand_p_value=0.0352058	frequency=2.201366e-02	genotype_quality=1126.6	ks_quality_p_value=0.756688	log10_base_likelihood=-14.0644	log10_qual_likelihood_position_model=3.29387	log10_strand_likelihood_position_model=1.55311	new_cov=0/6	polymorphism_quality=8.7	quality=8.7	quality_position_model=3.1528e-11	ref_cov=121/145	reject=POLYMORPHISM_STRAND	tot_cov=121/151
RA	344	.	NC_007779	3216599	0	A	G	bias_e_value=672646	bias_p_value=0.144769	fisher_strand_p_value=0.0331096	frequency=2.153301e-02	genotype_quality=1045.6	ks_quality_p_value=0.989596	log10_base_likelihood=-10.1023	log10_qual_likelihood_position_model=6.24438	log10_strand_likelihood_position_model=1.60772	new_cov=0/6	polymorphism_quality=4.7	quality=4.7	quality_position_model=0.000558854	ref_cov=125/143	reject=POLYMORPHISM_STRAND	tot_cov=126/149
RA	345	.	NC_007779	3216602	0	C	A	bias_e_value=61917.8	bias_p_value=0.0133262	fisher_strand_p_value=0.0341633	frequency=2.322483e-02	genotype_quality=1059.6	ks_quality_p_value=0.0533846	log10_base_likelihood=-14.4149	log10_qual_likelihood_position_model=4.0186	log10_strand_likelihood_position_model=1.57704	new_cov=0/6	polymorphism_quality=9.1	quality=9.1	quality_position_model=8.05416e-11	ref_cov=116/136	reject=POLYMORPHISM_STRAND	tot_cov=116/142
RA	346	.	NC_007779	3216614	0	C	T	bias_e_value=14522.3	bias_p_value=0.00312555	fisher_strand_p_value=0.0360815	frequency=2.215481e-02	genotype_quality=1128.4	ks_quality_p_value=0.00966681	log10_base_likelihood=-12.4797	log10_qual_likelihood_position_model=5.76599	log10_strand_likelihood_position_model=1.5337	new_cov=0/6	polymorphism_quality=7.1	quality=7.1	quality_position_model=4.51154e-07	ref_cov=119/145	reject=POLYMORPHISM_STRAND	tot_cov=119/151
RA	347	.	NC_007779	3216644	0	A	G	bias_e_value=164234	bias_p_value=0.0353469	fisher_strand_p_value=0.0624924	frequency=1.726723e-02	genotype_quality=1162.9	ks_quality_p_value=0.0918103	log10_base_likelihood=-11.1111	log10_qual_likelihood_position_model=5.21774	log10_strand_likelihood_position_model=1.39459	new_cov=0/5	polymorphism_quality=5.7	quality=5.7	quality_position_model=2.31152e-06	ref_cov=136/148	reject=POLYMORPHISM_STRAND	tot_cov=136/153
RA	348	.	NC_007779	3216647	0	C	A	bias_e_value=1977670	bias_p_value=0.425641	fisher_strand_p_value=0.2163	frequency=1.734924e-02	genotype_quality=1266.5	ks_quality_p_value=0.671905	log10_base_likelihood=-10.0342	log10_qual_likelihood_position_model=6.72233	log10_strand_likelihood_position_model=0.966041	new_cov=1/5	polymorphism_quality=4.6	quality=4.6	quality_position_model=0.000440332	ref_cov=141/149	reject=POLYMORPHISM_STRAND	tot_cov=142/154
RA	349	.	NC_007779	3223274	0	G	T	bias_e_value=3.06551	bias_p_value=6.5977e-07	fisher_strand_p_value=3.63933e-08	frequency=7.039976e-02	genotype_quality=661.8	ks_quality_p_value=1	log10_base_likelihood=-6.5002	log10_qual_likelihood_position_model=19.0742	log10_strand_likelihood_position_model=7.50842	new_cov=0/28	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=94/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/124
RA	350	.	NC_007779	3231832	1	.	G	bias_e_value=278997	bias_p_value=0.0600467	fisher_strand_p_value=0.0213719	frequency=1.315784e-02	genotype_quality=1139.4	ks_quality_p_value=0.508874	log10_base_likelihood=-13.1895	log10_qual_likelihood_position_model=1.64718	log10_strand_likelihood_position_model=1.67016	new_cov=3/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=6.75541e-12	ref_cov=61/164	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=64/164
RA	351	.	NC_007779	3238286	0	A	G	bias_e_value=3.50663	bias_p_value=7.54708e-07	fisher_strand_p_value=4.20708e-08	frequency=4.203510e-02	genotype_quality=504.3	ks_quality_p_value=0.997357	log10_base_likelihood=-6.89857	log10_qual_likelihood_position_model=7.71536	log10_strand_likelihood_position_model=7.37735	new_cov=1/6	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=139/3	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/9
RA	352	.	NC_007779	3238289	1	.	T	bias_e_value=90297	bias_p_value=0.019434	fisher_strand_p_value=0.0028777	frequency=1.427841e-02	genotype_quality=603.8	ks_quality_p_value=0.98337	log10_base_likelihood=-6.01354	log10_qual_likelihood_position_model=2.57314	log10_strand_likelihood_position_model=2.54095	new_cov=0/2	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.0185571	ref_cov=132/6	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=132/8
RA	353	.	NC_007779	3238315	1	.	T	bias_e_value=4090970	bias_p_value=0.880473	fisher_strand_p_value=0.55335	frequency=1.922989e-02	genotype_quality=715.5	ks_quality_p_value=0.998995	log10_base_likelihood=-11.9855	log10_qual_likelihood_position_model=3.67888	log10_strand_likelihood_position_model=0.584116	new_cov=3/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=1.07218e-09	ref_cov=97/56	reject=POLYMORPHISM_STRAND	tot_cov=100/56
RA	354	.	NC_007779	3238317	1	.	C	bias_e_value=2951240	bias_p_value=0.635177	fisher_strand_p_value=0.282919	frequency=2.040482e-02	genotype_quality=650.1	ks_quality_p_value=0.986207	log10_base_likelihood=-10.5479	log10_qual_likelihood_position_model=5.11283	log10_strand_likelihood_position_model=0.644923	new_cov=3/0	polymorphism_quality=5.1	quality=5.1	quality_position_model=1.14799e-06	ref_cov=87/57	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=90/57
RA	355	.	NC_007779	3238322	0	T	C	bias_e_value=583409	bias_p_value=0.125563	fisher_strand_p_value=0.0284819	frequency=3.623581e-02	genotype_quality=438.9	ks_quality_p_value=0.95811	log10_base_likelihood=-5.58143	log10_qual_likelihood_position_model=5.84661	log10_strand_likelihood_position_model=1.75879	new_cov=6/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=65/66	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=71/66
RA	356	.	NC_007779	3238324	0	A	C	bias_e_value=12307.4	bias_p_value=0.00264883	fisher_strand_p_value=0.000289583	frequency=5.636644e-02	genotype_quality=397.4	ks_quality_p_value=1	log10_base_likelihood=-6.73764	log10_qual_likelihood_position_model=11.3735	log10_strand_likelihood_position_model=3.53823	new_cov=11/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=57/69	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=68/69
RA	357	.	NC_007779	3258468	0	G	T	bias_e_value=2813.83	bias_p_value=0.000605602	fisher_strand_p_value=5.62467e-05	frequency=3.563690e-02	genotype_quality=853.2	ks_quality_p_value=0.998072	log10_base_likelihood=-8.27636	log10_qual_likelihood_position_model=13.9061	log10_strand_likelihood_position_model=4.31294	new_cov=0/15	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=121/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/136
RA	358	.	NC_007779	3267102	0	A	.	bias_e_value=2464590	bias_p_value=0.530438	fisher_strand_p_value=0.577152	frequency=1.713562e-02	genotype_quality=728.0	ks_quality_p_value=0.355811	log10_base_likelihood=-8.87433	log10_qual_likelihood_position_model=2.44822	log10_strand_likelihood_position_model=0.500219	new_cov=2/1	polymorphism_quality=3.4	quality=3.4	quality_position_model=7.60609e-08	ref_cov=73/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=75/100
RA	359	.	NC_007779	3280326	0	A	C	bias_e_value=3.13867e-15	bias_p_value=6.75515e-22	fisher_strand_p_value=1.25723e-23	frequency=1.124454e-01	genotype_quality=834.1	ks_quality_p_value=1	log10_base_likelihood=-18.0257	log10_qual_likelihood_position_model=40.1661	log10_strand_likelihood_position_model=22.9006	new_cov=0/53	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=159/68	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=159/121
RA	360	.	NC_007779	3285688	1	.	G	bias_e_value=2126010	bias_p_value=0.457567	fisher_strand_p_value=0.197708	frequency=7.246017e-03	genotype_quality=1395.6	ks_quality_p_value=0.821342	log10_base_likelihood=-8.18918	log10_qual_likelihood_position_model=1.15335	log10_strand_likelihood_position_model=0.703977	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.89529e-08	ref_cov=121/153	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/153
RA	361	.	NC_007779	3287872	1	.	G	bias_e_value=771225	bias_p_value=0.165986	fisher_strand_p_value=0.0520412	frequency=1.869106e-02	genotype_quality=1042.5	ks_quality_p_value=0.752146	log10_base_likelihood=-17.7554	log10_qual_likelihood_position_model=3.83508	log10_strand_likelihood_position_model=1.28365	new_cov=4/0	polymorphism_quality=12.4	quality=12.4	quality_position_model=1.03146e-14	ref_cov=99/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=103/111
RA	362	.	NC_007779	3292465	0	T	G	bias_e_value=0.318333	bias_p_value=6.85128e-08	fisher_strand_p_value=3.33924e-09	frequency=4.416180e-02	genotype_quality=643.5	ks_quality_p_value=1	log10_base_likelihood=-7.48778	log10_qual_likelihood_position_model=15.8133	log10_strand_likelihood_position_model=8.47635	new_cov=12/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=27/136	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=39/136
RA	363	.	NC_007779	3295537	0	G	C	bias_e_value=116	bias_p_value=2.4966e-05	fisher_strand_p_value=1.77679e-06	frequency=4.475117e-02	genotype_quality=789.0	ks_quality_p_value=0.985695	log10_base_likelihood=-9.15499	log10_qual_likelihood_position_model=17.1516	log10_strand_likelihood_position_model=5.75036	new_cov=13/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=70/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/137
RA	364	.	NC_007779	3300073	0	T	G	bias_e_value=0.0578798	bias_p_value=1.24571e-08	fisher_strand_p_value=5.58468e-10	frequency=5.878448e-02	genotype_quality=659.8	ks_quality_p_value=1	log10_base_likelihood=-6.28085	log10_qual_likelihood_position_model=35.6122	log10_strand_likelihood_position_model=9.43565	new_cov=31/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=87/104	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/104
RA	365	.	NC_007779	3333612	0	T	G	bias_e_value=0.352633	bias_p_value=7.58949e-08	fisher_strand_p_value=3.71853e-09	frequency=4.045200e-02	genotype_quality=666.7	ks_quality_p_value=1	log10_base_likelihood=-10.8438	log10_qual_likelihood_position_model=13.506	log10_strand_likelihood_position_model=8.42963	new_cov=10/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=19/145	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=29/146
RA	366	.	NC_007779	3350708	0	A	C	bias_e_value=28.4388	bias_p_value=6.12071e-06	fisher_strand_p_value=3.88335e-07	frequency=4.110718e-02	genotype_quality=707.4	ks_quality_p_value=1	log10_base_likelihood=-5.70397	log10_qual_likelihood_position_model=20.2464	log10_strand_likelihood_position_model=6.71298	new_cov=0/23	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=108/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/125
RA	367	.	NC_007779	3357279	0	C	A	bias_e_value=2.32789	bias_p_value=5.01016e-07	fisher_strand_p_value=3.37294e-08	frequency=5.551767e-02	genotype_quality=768.2	ks_quality_p_value=0.806401	log10_base_likelihood=-8.89024	log10_qual_likelihood_position_model=21.9028	log10_strand_likelihood_position_model=7.47199	new_cov=20/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=88/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/134
RA	368	.	NC_007779	3380462	0	G	T	bias_e_value=1373	bias_p_value=0.000295501	fisher_strand_p_value=2.55276e-05	frequency=3.717709e-02	genotype_quality=897.9	ks_quality_p_value=1	log10_base_likelihood=-7.78875	log10_qual_likelihood_position_model=14.9481	log10_strand_likelihood_position_model=4.59299	new_cov=0/14	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=137/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/128
RA	369	.	NC_007779	3385701	0	T	.	bias_e_value=3006420	bias_p_value=0.647053	fisher_strand_p_value=0.622493	frequency=1.537704e-02	genotype_quality=1017.9	ks_quality_p_value=0.463369	log10_base_likelihood=-11.4624	log10_qual_likelihood_position_model=1.94283	log10_strand_likelihood_position_model=0.582265	new_cov=3/1	polymorphism_quality=6.1	quality=6.1	quality_position_model=6.09835e-11	ref_cov=130/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/127
RA	370	.	NC_007779	3389914	0	A	C	bias_e_value=8.65702e-05	bias_p_value=1.86319e-11	fisher_strand_p_value=6.408e-13	frequency=9.718084e-02	genotype_quality=687.2	ks_quality_p_value=1	log10_base_likelihood=-13.9342	log10_qual_likelihood_position_model=27.307	log10_strand_likelihood_position_model=12.3399	new_cov=0/41	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=108/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/129
RA	371	.	NC_007779	3397405	0	A	C	bias_e_value=3.56432e-12	bias_p_value=7.67126e-19	fisher_strand_p_value=1.64788e-20	frequency=1.416464e-01	genotype_quality=641.6	ks_quality_p_value=1	log10_base_likelihood=-19.8867	log10_qual_likelihood_position_model=33.1702	log10_strand_likelihood_position_model=19.7831	new_cov=0/44	polymorphism_quality=14.6	quality=14.6	quality_position_model=Inf	ref_cov=127/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/96
RA	372	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=1163.9	new_cov=120/146	quality=1163.9	ref_cov=0/0	tot_cov=120/146
RA	373	.	NC_007779	3412753	0	C	T	bias_e_value=1.97461	bias_p_value=4.24982e-07	fisher_strand_p_value=2.2999e-08	frequency=4.641294e-02	genotype_quality=775.8	ks_quality_p_value=0.993774	log10_base_likelihood=-5.8373	log10_qual_likelihood_position_model=18.6236	log10_strand_likelihood_position_model=7.63829	new_cov=0/14	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=144/50	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/64
RA	374	.	NC_007779	3412772	0	A	C	bias_e_value=1.41028e-10	bias_p_value=3.03526e-17	fisher_strand_p_value=7.0934e-19	frequency=6.974936e-02	genotype_quality=706.1	ks_quality_p_value=1	log10_base_likelihood=-7.68112	log10_qual_likelihood_position_model=28.607	log10_strand_likelihood_position_model=18.1491	new_cov=0/26	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=150/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/51
RA	375	.	NC_007779	3414615	0	C	A	bias_e_value=373.307	bias_p_value=8.03444e-05	fisher_strand_p_value=6.18336e-06	frequency=3.762150e-02	genotype_quality=861.1	ks_quality_p_value=1	log10_base_likelihood=-8.80635	log10_qual_likelihood_position_model=13.4584	log10_strand_likelihood_position_model=5.20878	new_cov=16/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=109/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/131
RA	376	.	NC_007779	3439587	0	A	C	bias_e_value=564476	bias_p_value=0.121489	fisher_strand_p_value=0.0261638	frequency=1.987934e-02	genotype_quality=793.0	ks_quality_p_value=1	log10_base_likelihood=-6.07496	log10_qual_likelihood_position_model=7.27838	log10_strand_likelihood_position_model=1.5823	new_cov=5/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=94/104	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=99/104
RA	377	.	NC_007779	3440270	0	C	A	bias_e_value=3.31453	bias_p_value=7.13365e-07	fisher_strand_p_value=3.95299e-08	frequency=8.348513e-02	genotype_quality=739.1	ks_quality_p_value=1	log10_base_likelihood=-9.56773	log10_qual_likelihood_position_model=22.1409	log10_strand_likelihood_position_model=7.72344	new_cov=34/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=130/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=165/101
RA	378	.	NC_007779	3441442	0	C	A	bias_e_value=631.497	bias_p_value=0.000135913	fisher_strand_p_value=1.09404e-05	frequency=3.273106e-02	genotype_quality=863.8	ks_quality_p_value=1	log10_base_likelihood=-5.57873	log10_qual_likelihood_position_model=14.2953	log10_strand_likelihood_position_model=4.96097	new_cov=15/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=113/138	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/138
RA	379	.	NC_007779	3475527	0	T	G	bias_e_value=8.77733e-08	bias_p_value=1.88909e-14	fisher_strand_p_value=5.22008e-16	frequency=1.057024e-01	genotype_quality=692.4	ks_quality_p_value=1	log10_base_likelihood=-11.4228	log10_qual_likelihood_position_model=30.8919	log10_strand_likelihood_position_model=15.2823	new_cov=40/0	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=65/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/119
RA	380	.	NC_007779	3475533	0	C	T	bias_e_value=523.329	bias_p_value=0.000112633	fisher_strand_p_value=8.91983e-06	frequency=6.937170e-02	genotype_quality=775.6	ks_quality_p_value=1	log10_base_likelihood=-11.3525	log10_qual_likelihood_position_model=26.7952	log10_strand_likelihood_position_model=5.26896	new_cov=18/1	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=93/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/127
RA	381	.	NC_007779	3478395	1	.	T	bias_e_value=4044050	bias_p_value=0.870376	fisher_strand_p_value=1	frequency=7.490158e-03	genotype_quality=1308.5	ks_quality_p_value=0.536184	log10_base_likelihood=-8.33871	log10_qual_likelihood_position_model=1.39472	log10_strand_likelihood_position_model=0.299455	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.37769e-08	ref_cov=131/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/135
RA	382	.	NC_007779	3499066	0	A	C	bias_e_value=0.0998383	bias_p_value=2.14875e-08	fisher_strand_p_value=9.88629e-10	frequency=5.802774e-02	genotype_quality=754.2	ks_quality_p_value=1	log10_base_likelihood=-8.97862	log10_qual_likelihood_position_model=21.2242	log10_strand_likelihood_position_model=9.00497	new_cov=0/16	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=144/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/62
RA	383	.	NC_007779	3502837	0	A	C	bias_e_value=351123	bias_p_value=0.07557	fisher_strand_p_value=0.014428	frequency=1.749897e-02	genotype_quality=1039.3	ks_quality_p_value=0.999801	log10_base_likelihood=-10.7333	log10_qual_likelihood_position_model=8.84907	log10_strand_likelihood_position_model=2.13042	new_cov=7/0	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=128/134	reject=POLYMORPHISM_STRAND	tot_cov=135/134
RA	384	.	NC_007779	3519466	0	A	.	bias_e_value=4645560	bias_p_value=0.999834	fisher_strand_p_value=1	frequency=1.097965e-02	genotype_quality=1125.1	ks_quality_p_value=0.981852	log10_base_likelihood=-7.90984	log10_qual_likelihood_position_model=2.40861	log10_strand_likelihood_position_model=0.407801	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=5.55013e-07	ref_cov=130/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/142
RA	385	.	NC_007779	3521017	1	.	G	bias_e_value=3933400	bias_p_value=0.846561	fisher_strand_p_value=0.50012	frequency=8.260727e-03	genotype_quality=1179.4	ks_quality_p_value=0.999725	log10_base_likelihood=-5.86865	log10_qual_likelihood_position_model=4.16377	log10_strand_likelihood_position_model=0.548033	new_cov=2/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.0092137	ref_cov=127/113	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=129/113
RA	386	.	NC_007779	3523734	0	G	T	bias_e_value=218.681	bias_p_value=4.70653e-05	fisher_strand_p_value=3.46783e-06	frequency=7.034636e-02	genotype_quality=725.3	ks_quality_p_value=1	log10_base_likelihood=-16.0919	log10_qual_likelihood_position_model=18.5129	log10_strand_likelihood_position_model=5.61592	new_cov=0/22	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=101/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/137
RA	387	.	NC_007779	3523811	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=8.333206e-03	genotype_quality=1211.5	ks_quality_p_value=0.99993	log10_base_likelihood=-7.64964	log10_qual_likelihood_position_model=2.66519	log10_strand_likelihood_position_model=0.310243	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.51634e-06	ref_cov=100/138	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=101/139
RA	388	.	NC_007779	3543517	0	C	G	bias_e_value=1824.47	bias_p_value=0.000392669	fisher_strand_p_value=3.486e-05	frequency=5.307674e-02	genotype_quality=616.5	ks_quality_p_value=1	log10_base_likelihood=-8.09284	log10_qual_likelihood_position_model=11.7555	log10_strand_likelihood_position_model=4.45767	new_cov=0/11	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=97/57	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/68
RA	389	.	NC_007779	3543547	0	A	C	bias_e_value=4.22417e-10	bias_p_value=9.0914e-17	fisher_strand_p_value=2.18196e-18	frequency=1.797442e-01	genotype_quality=601.2	ks_quality_p_value=1	log10_base_likelihood=-25.5235	log10_qual_likelihood_position_model=42.3171	log10_strand_likelihood_position_model=17.8468	new_cov=0/49	polymorphism_quality=20.3	quality=20.3	quality_position_model=Inf	ref_cov=104/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/105
RA	390	.	NC_007779	3550877	0	C	A	bias_e_value=17.4923	bias_p_value=3.76476e-06	fisher_strand_p_value=2.31254e-07	frequency=4.138184e-02	genotype_quality=947.3	ks_quality_p_value=1	log10_base_likelihood=-8.42994	log10_qual_likelihood_position_model=14.0323	log10_strand_likelihood_position_model=6.63591	new_cov=20/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=117/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/146
RA	391	.	NC_007779	3560478	0	G	T	bias_e_value=247.484	bias_p_value=5.32644e-05	fisher_strand_p_value=3.96361e-06	frequency=5.835533e-02	genotype_quality=826.4	ks_quality_p_value=1	log10_base_likelihood=-9.78987	log10_qual_likelihood_position_model=15.3096	log10_strand_likelihood_position_model=5.52333	new_cov=0/22	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=109/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/150
RA	392	.	NC_007779	3561760	1	.	T	bias_e_value=931797	bias_p_value=0.200545	fisher_strand_p_value=0.516965	frequency=7.604599e-03	genotype_quality=1320.4	ks_quality_p_value=0.0972082	log10_base_likelihood=-8.37789	log10_qual_likelihood_position_model=1.24652	log10_strand_likelihood_position_model=0.449233	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.26007e-08	ref_cov=155/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=157/106
RA	393	.	NC_007779	3576400	1	.	A	bias_e_value=1607810	bias_p_value=0.346038	fisher_strand_p_value=0.229581	frequency=2.033806e-02	genotype_quality=1424.2	ks_quality_p_value=0.465873	log10_base_likelihood=-26.1501	log10_qual_likelihood_position_model=4.5087	log10_strand_likelihood_position_model=0.86394	new_cov=1/5	polymorphism_quality=20.9	quality=20.9	quality_position_model=5.85359e-23	ref_cov=131/158	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/163
RA	394	.	NC_007779	3609437	1	.	G	bias_e_value=1041070	bias_p_value=0.224063	fisher_strand_p_value=0.167756	frequency=6.172180e-03	genotype_quality=1636.5	ks_quality_p_value=0.347666	log10_base_likelihood=-7.97518	log10_qual_likelihood_position_model=2.45865	log10_strand_likelihood_position_model=0.775322	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.29104e-06	ref_cov=131/191	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/191
RA	395	.	NC_007779	3609441	0	T	G	bias_e_value=1.30965e-12	bias_p_value=2.81867e-19	fisher_strand_p_value=5.92467e-21	frequency=6.250715e-02	genotype_quality=1002.5	ks_quality_p_value=1	log10_base_likelihood=-7.57561	log10_qual_likelihood_position_model=34.334	log10_strand_likelihood_position_model=20.2273	new_cov=44/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=79/189	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/189
RA	396	.	NC_007779	3627544	1	.	T	bias_e_value=4459410	bias_p_value=0.959771	fisher_strand_p_value=1	frequency=1.132107e-02	genotype_quality=1314.5	ks_quality_p_value=0.730102	log10_base_likelihood=-12.8576	log10_qual_likelihood_position_model=2.13641	log10_strand_likelihood_position_model=0.416302	new_cov=2/1	polymorphism_quality=7.5	quality=7.5	quality_position_model=2.44329e-12	ref_cov=133/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/130
RA	397	.	NC_007779	3635019	0	G	.	bias_e_value=1192650	bias_p_value=0.256685	fisher_strand_p_value=0.501623	frequency=7.629395e-03	genotype_quality=1133.2	ks_quality_p_value=0.13995	log10_base_likelihood=-5.6739	log10_qual_likelihood_position_model=1.34922	log10_strand_likelihood_position_model=0.533434	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=1.27476e-05	ref_cov=140/120	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=142/120
RA	398	.	NC_007779	3651641	0	G	C	bias_e_value=11812.4	bias_p_value=0.0025423	fisher_strand_p_value=0.000276612	frequency=3.055382e-02	genotype_quality=1223.9	ks_quality_p_value=0.999753	log10_base_likelihood=-17.6338	log10_qual_likelihood_position_model=9.9769	log10_strand_likelihood_position_model=3.55813	new_cov=11/0	polymorphism_quality=12.3	quality=12.3	quality_position_model=6.05979e-06	ref_cov=136/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/157
RA	399	.	NC_007779	3651644	0	A	T	bias_e_value=102109	bias_p_value=0.0219762	fisher_strand_p_value=0.003271	frequency=2.258968e-02	genotype_quality=1168.6	ks_quality_p_value=0.999275	log10_base_likelihood=-8.59673	log10_qual_likelihood_position_model=10.7161	log10_strand_likelihood_position_model=2.48532	new_cov=8/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=141/152	reject=POLYMORPHISM_STRAND	tot_cov=149/152
RA	400	.	NC_007779	3652358	1	.	C	bias_e_value=3930990	bias_p_value=0.846042	fisher_strand_p_value=0.499468	frequency=7.193565e-03	genotype_quality=1407.5	ks_quality_p_value=0.999531	log10_base_likelihood=-6.94108	log10_qual_likelihood_position_model=4.58549	log10_strand_likelihood_position_model=0.560804	new_cov=2/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=0.00175856	ref_cov=144/132	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=146/132
RA	401	.	NC_007779	3653996	1	.	G	bias_e_value=4642960	bias_p_value=0.999274	fisher_strand_p_value=1	frequency=6.992340e-03	genotype_quality=1416.9	ks_quality_p_value=0.962127	log10_base_likelihood=-7.81033	log10_qual_likelihood_position_model=2.6859	log10_strand_likelihood_position_model=0.314108	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.09377e-06	ref_cov=168/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=169/117
RA	402	.	NC_007779	3665059	0	C	A	bias_e_value=1.08377	bias_p_value=2.33253e-07	fisher_strand_p_value=1.21312e-08	frequency=4.159164e-02	genotype_quality=1076.1	ks_quality_p_value=1	log10_base_likelihood=-6.52572	log10_qual_likelihood_position_model=20.1789	log10_strand_likelihood_position_model=8.03197	new_cov=26/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=144/163	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/163
RA	403	.	NC_007779	3671123	1	.	A	bias_e_value=3583600	bias_p_value=0.771274	fisher_strand_p_value=1	frequency=8.230209e-03	genotype_quality=1221.4	ks_quality_p_value=0.40523	log10_base_likelihood=-8.77849	log10_qual_likelihood_position_model=1.61469	log10_strand_likelihood_position_model=0.310572	new_cov=1/1	polymorphism_quality=3.3	quality=3.3	quality_position_model=8.3969e-09	ref_cov=140/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/102
RA	404	.	NC_007779	3673380	0	G	T	bias_e_value=246.434	bias_p_value=5.30384e-05	fisher_strand_p_value=5.19766e-06	frequency=4.555511e-02	genotype_quality=866.0	ks_quality_p_value=0.75908	log10_base_likelihood=-9.1315	log10_qual_likelihood_position_model=21.7425	log10_strand_likelihood_position_model=5.37865	new_cov=0/18	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=131/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/141
RA	405	.	NC_007779	3686205	0	A	.	bias_e_value=4216250	bias_p_value=0.907436	fisher_strand_p_value=1	frequency=1.525974e-02	genotype_quality=1066.4	ks_quality_p_value=0.601847	log10_base_likelihood=-11.5539	log10_qual_likelihood_position_model=3.22441	log10_strand_likelihood_position_model=0.42391	new_cov=2/2	polymorphism_quality=6.1	quality=6.1	quality_position_model=6.95589e-10	ref_cov=134/124	reject=INDEL_HOMOPOLYMER	tot_cov=136/126
RA	406	.	NC_007779	3688858	0	A	C	bias_e_value=8.99992e-08	bias_p_value=1.937e-14	fisher_strand_p_value=5.35628e-16	frequency=1.299562e-01	genotype_quality=596.6	ks_quality_p_value=1	log10_base_likelihood=-15.5064	log10_qual_likelihood_position_model=28.5595	log10_strand_likelihood_position_model=15.2711	new_cov=0/40	polymorphism_quality=10.2	quality=10.2	quality_position_model=Inf	ref_cov=106/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/96
RA	407	.	NC_007779	3701118	0	G	T	bias_e_value=0.577262	bias_p_value=1.2424e-07	fisher_strand_p_value=6.24596e-09	frequency=8.381605e-02	genotype_quality=731.7	ks_quality_p_value=1	log10_base_likelihood=-14.0987	log10_qual_likelihood_position_model=19.5119	log10_strand_likelihood_position_model=8.50543	new_cov=0/26	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=117/91	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/118
RA	408	.	NC_007779	3711109	0	C	A	bias_e_value=0.4498	bias_p_value=9.68076e-08	fisher_strand_p_value=4.80341e-09	frequency=8.872986e-02	genotype_quality=782.4	ks_quality_p_value=1	log10_base_likelihood=-14.0661	log10_qual_likelihood_position_model=21.1825	log10_strand_likelihood_position_model=8.55436	new_cov=34/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=127/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=162/113
RA	409	.	NC_007779	3729313	0	G	T	bias_e_value=0.614657	bias_p_value=1.32289e-07	fisher_strand_p_value=8.58447e-09	frequency=4.953003e-02	genotype_quality=910.4	ks_quality_p_value=0.777304	log10_base_likelihood=-8.73637	log10_qual_likelihood_position_model=23.6194	log10_strand_likelihood_position_model=8.06629	new_cov=0/23	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=150/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/132
RA	410	.	NC_007779	3731041	1	.	T	bias_e_value=4211580	bias_p_value=0.906432	fisher_strand_p_value=1	frequency=1.156998e-02	genotype_quality=1240.0	ks_quality_p_value=0.599876	log10_base_likelihood=-9.34098	log10_qual_likelihood_position_model=1.19251	log10_strand_likelihood_position_model=0.301547	new_cov=1/1	polymorphism_quality=3.9	quality=3.9	quality_position_model=7.99006e-10	ref_cov=115/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/135
RA	411	.	NC_007779	3731042	0	T	.	bias_e_value=4051330	bias_p_value=0.871941	fisher_strand_p_value=1	frequency=1.148796e-02	genotype_quality=1036.8	ks_quality_p_value=0.538705	log10_base_likelihood=-8.45602	log10_qual_likelihood_position_model=1.5145	log10_strand_likelihood_position_model=0.389382	new_cov=1/2	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.7156e-08	ref_cov=117/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/142
RA	412	.	NC_007779	3734364	1	.	A	bias_e_value=4523540	bias_p_value=0.973573	fisher_strand_p_value=1	frequency=1.224422e-02	genotype_quality=1214.8	ks_quality_p_value=0.779088	log10_base_likelihood=-12.2781	log10_qual_likelihood_position_model=3.11543	log10_strand_likelihood_position_model=0.418929	new_cov=1/2	polymorphism_quality=6.9	quality=6.9	quality_position_model=9.6234e-11	ref_cov=120/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/124
RA	413	.	NC_007779	3750122	0	C	.	bias_e_value=867670	bias_p_value=0.186743	fisher_strand_p_value=0.371729	frequency=1	genotype_quality=1336.8	ks_quality_p_value=0.122964	log10_base_likelihood=-22.4236	log10_qual_likelihood_position_model=4.3672	log10_strand_likelihood_position_model=0.766459	new_cov=129/135	polymorphism_changed_to_consensus=1	polymorphism_quality=17.2	quality=17.2	quality_position_model=1.96776e-19	ref_cov=1/4	tot_cov=130/139
RA	414	.	NC_007779	3750123	0	C	T	bias_e_value=3424580	bias_p_value=0.73705	fisher_strand_p_value=0.371729	frequency=1.823521e-02	genotype_quality=1118.6	ks_quality_p_value=0.993124	log10_base_likelihood=-7.86841	log10_qual_likelihood_position_model=6.91981	log10_strand_likelihood_position_model=0.766459	new_cov=1/4	polymorphism_quality=2.4	quality=2.4	quality_position_model=0.193642	ref_cov=129/135	reject=POLYMORPHISM_STRAND	tot_cov=130/139
RA	415	.	NC_007779	3758414	0	G	T	bias_e_value=10034.3	bias_p_value=0.00215962	fisher_strand_p_value=0.000230336	frequency=2.709007e-02	genotype_quality=901.5	ks_quality_p_value=1	log10_base_likelihood=-5.99991	log10_qual_likelihood_position_model=13.8082	log10_strand_likelihood_position_model=3.7207	new_cov=0/13	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=124/126	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/140
RA	416	.	NC_007779	3763528	0	A	C	bias_e_value=0.129276	bias_p_value=2.78231e-08	fisher_strand_p_value=1.29628e-09	frequency=3.919601e-02	genotype_quality=565.8	ks_quality_p_value=1	log10_base_likelihood=-6.82224	log10_qual_likelihood_position_model=11.1048	log10_strand_likelihood_position_model=8.8873	new_cov=0/7	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=136/4	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/11
RA	417	.	NC_007779	3779341	0	G	T	bias_e_value=4230480	bias_p_value=0.910499	fisher_strand_p_value=0.615644	frequency=1.072216e-02	genotype_quality=1218.9	ks_quality_p_value=0.987487	log10_base_likelihood=-5.93712	log10_qual_likelihood_position_model=2.56701	log10_strand_likelihood_position_model=0.434151	new_cov=1/2	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.000102489	ref_cov=141/134	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=142/136
RA	418	.	NC_007779	3788380	0	G	T	bias_e_value=15.7119	bias_p_value=3.38156e-06	fisher_strand_p_value=2.06267e-07	frequency=7.033157e-02	genotype_quality=739.5	ks_quality_p_value=1	log10_base_likelihood=-11.5768	log10_qual_likelihood_position_model=15.9274	log10_strand_likelihood_position_model=6.80784	new_cov=0/24	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=108/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/129
RA	419	.	NC_007779	3811905	1	.	A	bias_e_value=2053760	bias_p_value=0.442018	fisher_strand_p_value=0.168345	frequency=7.091522e-03	genotype_quality=1421.1	ks_quality_p_value=0.914515	log10_base_likelihood=-7.6404	log10_qual_likelihood_position_model=3.18295	log10_strand_likelihood_position_model=0.7738	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.65464e-05	ref_cov=114/166	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/166
RA	420	.	NC_007779	3812429	0	G	T	bias_e_value=88.7074	bias_p_value=1.90919e-05	fisher_strand_p_value=1.31276e-06	frequency=3.556728e-02	genotype_quality=961.4	ks_quality_p_value=1	log10_base_likelihood=-5.77066	log10_qual_likelihood_position_model=15.5566	log10_strand_likelihood_position_model=5.88182	new_cov=0/17	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=146/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/128
RA	421	.	NC_007779	3835359	0	A	.	bias_e_value=4069370	bias_p_value=0.875824	fisher_strand_p_value=1	frequency=2.097225e-02	genotype_quality=593.1	ks_quality_p_value=0.545042	log10_base_likelihood=-9.17004	log10_qual_likelihood_position_model=2.04321	log10_strand_likelihood_position_model=0.350435	new_cov=1/2	polymorphism_quality=3.7	quality=3.7	quality_position_model=1.00753e-08	ref_cov=51/89	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=52/91
RA	422	.	NC_007779	3859254	1	.	T	bias_e_value=1576120	bias_p_value=0.339219	fisher_strand_p_value=0.117071	frequency=8.810043e-03	genotype_quality=1131.6	ks_quality_p_value=0.887702	log10_base_likelihood=-8.37155	log10_qual_likelihood_position_model=1.06236	log10_strand_likelihood_position_model=0.931549	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.59675e-08	ref_cov=76/149	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=78/149
RA	423	.	NC_007779	3859263	0	T	C	bias_e_value=1.67149	bias_p_value=3.59744e-07	fisher_strand_p_value=1.91657e-08	frequency=4.788828e-02	genotype_quality=693.1	ks_quality_p_value=1	log10_base_likelihood=-11.5625	log10_qual_likelihood_position_model=12.8636	log10_strand_likelihood_position_model=7.71747	new_cov=12/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=39/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/154
RA	424	.	NC_007779	3859270	0	G	C	bias_e_value=70.6288	bias_p_value=1.5201e-05	fisher_strand_p_value=1.02793e-06	frequency=4.071426e-02	genotype_quality=789.6	ks_quality_p_value=1	log10_base_likelihood=-11.8944	log10_qual_likelihood_position_model=10.7479	log10_strand_likelihood_position_model=5.98804	new_cov=9/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=37/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/152
RA	425	.	NC_007779	3859383	0	A	G	bias_e_value=39.4965	bias_p_value=8.50058e-06	fisher_strand_p_value=5.57371e-07	frequency=4.036999e-02	genotype_quality=498.4	ks_quality_p_value=0.989668	log10_base_likelihood=-5.71236	log10_qual_likelihood_position_model=8.87408	log10_strand_likelihood_position_model=6.25386	new_cov=0/6	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=124/9	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/15
RA	426	.	NC_007779	3866109	0	G	T	bias_e_value=224.325	bias_p_value=4.82801e-05	fisher_strand_p_value=3.56456e-06	frequency=4.975605e-02	genotype_quality=670.0	ks_quality_p_value=1	log10_base_likelihood=-7.08041	log10_qual_likelihood_position_model=11.9493	log10_strand_likelihood_position_model=5.47708	new_cov=0/21	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=106/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/139
RA	427	.	NC_007779	3872210	1	.	A	bias_e_value=1407470	bias_p_value=0.30292	fisher_strand_p_value=0.506514	frequency=9.132385e-03	genotype_quality=1100.0	ks_quality_p_value=0.174585	log10_base_likelihood=-8.53758	log10_qual_likelihood_position_model=0.934608	log10_strand_likelihood_position_model=0.495574	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=4.59691e-09	ref_cov=122/95	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/95
RA	428	.	NC_007779	3873374	1	.	T	bias_e_value=4646330	bias_p_value=0.999999	fisher_strand_p_value=1	frequency=8.849144e-03	genotype_quality=1132.0	ks_quality_p_value=0.998737	log10_base_likelihood=-8.72181	log10_qual_likelihood_position_model=2.82548	log10_strand_likelihood_position_model=0.301868	new_cov=1/1	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.67605e-07	ref_cov=103/121	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/122
RA	429	.	NC_007779	3873375	0	T	.	bias_e_value=1089830	bias_p_value=0.234558	fisher_strand_p_value=0.181813	frequency=2.201843e-02	genotype_quality=919.3	ks_quality_p_value=0.341325	log10_base_likelihood=-15.0643	log10_qual_likelihood_position_model=2.6827	log10_strand_likelihood_position_model=0.929202	new_cov=4/1	polymorphism_quality=9.7	quality=9.7	quality_position_model=1.65339e-13	ref_cov=100/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/123
RA	430	.	NC_007779	3891907	0	T	.	bias_e_value=4038470	bias_p_value=0.869175	fisher_strand_p_value=0.614354	frequency=1.228809e-02	genotype_quality=992.7	ks_quality_p_value=0.869633	log10_base_likelihood=-8.50188	log10_qual_likelihood_position_model=1.54711	log10_strand_likelihood_position_model=0.435351	new_cov=2/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.8542e-08	ref_cov=117/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/125
RA	431	.	NC_007779	3893880	0	G	T	bias_e_value=0.507578	bias_p_value=1.09243e-07	fisher_strand_p_value=5.45483e-09	frequency=9.461498e-02	genotype_quality=672.1	ks_quality_p_value=1	log10_base_likelihood=-18.2546	log10_qual_likelihood_position_model=20.92	log10_strand_likelihood_position_model=8.29769	new_cov=0/29	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=104/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/126
RA	432	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=1238.3	new_cov=130/153	quality=1238.3	ref_cov=0/1	tot_cov=130/154
RA	433	.	NC_007779	3900680	0	T	G	bias_e_value=5.5484e-07	bias_p_value=1.19415e-13	fisher_strand_p_value=3.48239e-15	frequency=8.841228e-02	genotype_quality=590.7	ks_quality_p_value=1	log10_base_likelihood=-16.732	log10_qual_likelihood_position_model=21.7583	log10_strand_likelihood_position_model=14.4581	new_cov=17/0	polymorphism_quality=11.4	quality=11.4	quality_position_model=Inf	ref_cov=13/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=30/130
RA	434	.	NC_007779	3903804	0	G	T	bias_e_value=1643.09	bias_p_value=0.000353632	fisher_strand_p_value=3.10775e-05	frequency=4.363728e-02	genotype_quality=821.7	ks_quality_p_value=1	log10_base_likelihood=-6.62443	log10_qual_likelihood_position_model=14.4163	log10_strand_likelihood_position_model=4.82084	new_cov=0/19	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=107/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/144
RA	435	.	NC_007779	3910746	0	C	A	bias_e_value=0.0828687	bias_p_value=1.78353e-08	fisher_strand_p_value=8.13285e-10	frequency=7.661152e-02	genotype_quality=908.5	ks_quality_p_value=1	log10_base_likelihood=-13.9612	log10_qual_likelihood_position_model=29.8475	log10_strand_likelihood_position_model=9.11772	new_cov=34/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=134/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/129
RA	436	.	NC_007779	3927488	1	.	A	bias_e_value=3573100	bias_p_value=0.769014	fisher_strand_p_value=0.500465	frequency=8.439064e-03	genotype_quality=1182.5	ks_quality_p_value=0.804725	log10_base_likelihood=-8.51872	log10_qual_likelihood_position_model=1.10204	log10_strand_likelihood_position_model=0.543486	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=8.00855e-09	ref_cov=125/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/110
RA	437	.	NC_007779	3930443	0	T	G	bias_e_value=1.90942e-11	bias_p_value=4.10953e-18	fisher_strand_p_value=9.16564e-20	frequency=1.034274e-01	genotype_quality=699.4	ks_quality_p_value=1	log10_base_likelihood=-13.5718	log10_qual_likelihood_position_model=30.7085	log10_strand_likelihood_position_model=19.0378	new_cov=33/0	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=36/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/144
RA	438	.	NC_007779	3952095	1	.	G	bias_e_value=21158	bias_p_value=0.00455371	fisher_strand_p_value=0.00103331	frequency=3.015041e-02	genotype_quality=960.3	ks_quality_p_value=0.516268	log10_base_likelihood=-28.2449	log10_qual_likelihood_position_model=2.74246	log10_strand_likelihood_position_model=2.98577	new_cov=6/0	polymorphism_quality=23.0	quality=23.0	quality_position_model=1.02586e-24	ref_cov=59/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=65/134
RA	439	.	NC_007779	3952099	0	T	G	bias_e_value=0.0633058	bias_p_value=1.36249e-08	fisher_strand_p_value=6.13403e-10	frequency=4.841805e-02	genotype_quality=621.3	ks_quality_p_value=1	log10_base_likelihood=-6.8644	log10_qual_likelihood_position_model=14.1778	log10_strand_likelihood_position_model=9.21225	new_cov=9/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=10/141	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=19/141
RA	440	.	NC_007779	3952168	0	G	.	bias_e_value=1453170	bias_p_value=0.312757	fisher_strand_p_value=0.154264	frequency=9.611130e-03	genotype_quality=881.1	ks_quality_p_value=0.599774	log10_base_likelihood=-5.88653	log10_qual_likelihood_position_model=1.02981	log10_strand_likelihood_position_model=0.811735	new_cov=2/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=6.90021e-06	ref_cov=80/126	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=82/126
RA	441	.	NC_007779	4000535	1	.	A	bias_e_value=3838910	bias_p_value=0.826225	fisher_strand_p_value=0.499557	frequency=7.936478e-03	genotype_quality=1263.6	ks_quality_p_value=0.944459	log10_base_likelihood=-8.46448	log10_qual_likelihood_position_model=1.4516	log10_strand_likelihood_position_model=0.556649	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=2.15446e-08	ref_cov=131/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/119
RA	442	.	NC_007779	4023068	0	T	G	bias_e_value=0.0825515	bias_p_value=1.7767e-08	fisher_strand_p_value=8.10023e-10	frequency=6.748104e-02	genotype_quality=516.9	ks_quality_p_value=1	log10_base_likelihood=-7.38459	log10_qual_likelihood_position_model=15.888	log10_strand_likelihood_position_model=9.0915	new_cov=16/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=30/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/103
RA	443	.	NC_007779	4029622	1	.	G	bias_e_value=1360290	bias_p_value=0.292767	fisher_strand_p_value=0.108775	frequency=1.229477e-02	genotype_quality=1200.5	ks_quality_p_value=0.774851	log10_base_likelihood=-12.4593	log10_qual_likelihood_position_model=1.60229	log10_strand_likelihood_position_model=0.96347	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=6.42426e-12	ref_cov=114/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/127
RA	444	.	NC_007779	4029633	0	T	G	bias_e_value=2.78133e-13	bias_p_value=5.98607e-20	fisher_strand_p_value=1.21774e-21	frequency=1.270018e-01	genotype_quality=668.4	ks_quality_p_value=1	log10_base_likelihood=-25.7773	log10_qual_likelihood_position_model=30.8806	log10_strand_likelihood_position_model=20.9144	new_cov=33/0	polymorphism_quality=20.5	quality=20.5	quality_position_model=Inf	ref_cov=27/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=60/141
RA	445	.	NC_007779	4031691	1	.	T	bias_e_value=67920.6	bias_p_value=0.0146181	fisher_strand_p_value=0.00217056	frequency=2.958584e-02	genotype_quality=802.1	ks_quality_p_value=0.935444	log10_base_likelihood=-23.406	log10_qual_likelihood_position_model=3.91011	log10_strand_likelihood_position_model=2.66343	new_cov=5/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=5.71659e-19	ref_cov=46/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=51/118
RA	446	.	NC_007779	4031695	1	.	C	bias_e_value=935601	bias_p_value=0.201363	fisher_strand_p_value=0.0523585	frequency=1.249981e-02	genotype_quality=765.8	ks_quality_p_value=0.965025	log10_base_likelihood=-7.57661	log10_qual_likelihood_position_model=2.80346	log10_strand_likelihood_position_model=1.28101	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.63456e-05	ref_cov=35/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=37/123
RA	447	.	NC_007779	4037745	0	G	T	bias_e_value=96.9478	bias_p_value=2.08654e-05	fisher_strand_p_value=1.44418e-06	frequency=3.558064e-02	genotype_quality=921.9	ks_quality_p_value=1	log10_base_likelihood=-5.98176	log10_qual_likelihood_position_model=14.6917	log10_strand_likelihood_position_model=5.84038	new_cov=0/16	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=152/107	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/123
RA	448	.	NC_007779	4043703	0	C	A	bias_e_value=36.8478	bias_p_value=7.93052e-06	fisher_strand_p_value=5.12154e-07	frequency=3.982830e-02	genotype_quality=872.1	ks_quality_p_value=1	log10_base_likelihood=-5.80942	log10_qual_likelihood_position_model=15.3085	log10_strand_likelihood_position_model=6.47628	new_cov=23/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=134/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/133
RA	449	.	NC_007779	4052978	0	G	T	bias_e_value=1.97777e-05	bias_p_value=4.25663e-12	fisher_strand_p_value=1.39089e-13	frequency=6.725979e-02	genotype_quality=891.3	ks_quality_p_value=1	log10_base_likelihood=-8.84627	log10_qual_likelihood_position_model=23.3367	log10_strand_likelihood_position_model=12.8567	new_cov=0/33	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=156/91	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/125
RA	450	.	NC_007779	4055100	0	G	T	bias_e_value=26284.1	bias_p_value=0.00565696	fisher_strand_p_value=0.000724313	frequency=3.203773e-02	genotype_quality=774.0	ks_quality_p_value=0.942121	log10_base_likelihood=-7.11819	log10_qual_likelihood_position_model=13.3305	log10_strand_likelihood_position_model=3.14007	new_cov=8/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=82/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/127
RA	451	.	NC_007779	4055329	0	T	G	bias_e_value=3.58744e-11	bias_p_value=7.72102e-18	fisher_strand_p_value=1.74719e-19	frequency=7.539415e-02	genotype_quality=703.0	ks_quality_p_value=1	log10_base_likelihood=-12.896	log10_qual_likelihood_position_model=28.9981	log10_strand_likelihood_position_model=18.7577	new_cov=30/0	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=33/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/153
RA	452	.	NC_007779	4059484	1	.	T	bias_e_value=1179310	bias_p_value=0.253815	fisher_strand_p_value=0.497928	frequency=8.584023e-03	genotype_quality=1149.7	ks_quality_p_value=0.138824	log10_base_likelihood=-8.43246	log10_qual_likelihood_position_model=1.73284	log10_strand_likelihood_position_model=0.592776	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=4.94412e-08	ref_cov=116/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/115
RA	453	.	NC_007779	4059485	0	T	.	bias_e_value=2377770	bias_p_value=0.511752	fisher_strand_p_value=0.247071	frequency=1.249123e-02	genotype_quality=990.8	ks_quality_p_value=0.784242	log10_base_likelihood=-8.18175	log10_qual_likelihood_position_model=2.63936	log10_strand_likelihood_position_model=0.88686	new_cov=3/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.58593e-06	ref_cov=119/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/118
RA	454	.	NC_007779	4062114	0	T	G	bias_e_value=3.88722e-12	bias_p_value=8.36622e-19	fisher_strand_p_value=1.8006e-20	frequency=1.269526e-01	genotype_quality=582.8	ks_quality_p_value=1	log10_base_likelihood=-17.1662	log10_qual_likelihood_position_model=30.2039	log10_strand_likelihood_position_model=19.7446	new_cov=34/0	polymorphism_quality=11.8	quality=11.8	quality_position_model=Inf	ref_cov=27/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=61/121
RA	455	.	NC_007779	4064463	0	G	T	bias_e_value=0.884535	bias_p_value=1.90373e-07	fisher_strand_p_value=9.79199e-09	frequency=7.304859e-02	genotype_quality=750.3	ks_quality_p_value=1	log10_base_likelihood=-12.2472	log10_qual_likelihood_position_model=18.461	log10_strand_likelihood_position_model=8.12379	new_cov=0/28	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=117/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/137
RA	456	.	NC_007779	4074542	0	C	A	bias_e_value=2785.11	bias_p_value=0.000599421	fisher_strand_p_value=5.67579e-05	frequency=4.591751e-02	genotype_quality=694.0	ks_quality_p_value=0.977963	log10_base_likelihood=-6.24458	log10_qual_likelihood_position_model=14.9202	log10_strand_likelihood_position_model=4.24597	new_cov=0/12	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=110/81	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/93
RA	457	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=1038.9	new_cov=132/122	quality=1038.9	ref_cov=0/0	tot_cov=132/123
RA	458	.	NC_007779	4098730	0	G	T	bias_e_value=0.00173528	bias_p_value=3.73473e-10	fisher_strand_p_value=1.43837e-11	frequency=8.930349e-02	genotype_quality=762.9	ks_quality_p_value=1	log10_base_likelihood=-23.1596	log10_qual_likelihood_position_model=20.993	log10_strand_likelihood_position_model=10.8421	new_cov=0/30	polymorphism_quality=17.9	quality=17.9	quality_position_model=Inf	ref_cov=135/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/120
RA	459	.	NC_007779	4115400	1	.	C	bias_e_value=811241	bias_p_value=0.174598	fisher_strand_p_value=0.041828	frequency=1.545429e-02	genotype_quality=904.5	ks_quality_p_value=1	log10_base_likelihood=-8.55683	log10_qual_likelihood_position_model=3.6983	log10_strand_likelihood_position_model=1.37853	new_cov=0/3	polymorphism_quality=3.1	quality=3.1	quality_position_model=2.71351e-05	ref_cov=126/65	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/68
RA	460	.	NC_007779	4124974	0	G	T	bias_e_value=3.80496e-05	bias_p_value=8.18917e-12	fisher_strand_p_value=2.73638e-13	frequency=9.924889e-02	genotype_quality=840.8	ks_quality_p_value=1	log10_base_likelihood=-23.7608	log10_qual_likelihood_position_model=21.7125	log10_strand_likelihood_position_model=12.5628	new_cov=0/34	polymorphism_quality=18.5	quality=18.5	quality_position_model=Inf	ref_cov=142/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/123
RA	461	.	NC_007779	4157323	0	C	A	bias_e_value=326.61	bias_p_value=7.02941e-05	fisher_strand_p_value=6.30657e-06	frequency=5.344868e-02	genotype_quality=669.2	ks_quality_p_value=0.848368	log10_base_likelihood=-6.22068	log10_qual_likelihood_position_model=22.493	log10_strand_likelihood_position_model=5.23394	new_cov=20/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=101/92	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/92
RA	462	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1125.0	new_cov=133/123	quality=1125.0	ref_cov=0/0	tot_cov=133/123
RA	463	.	NC_007779	4174730	0	T	.	bias_e_value=4633520	bias_p_value=0.997243	fisher_strand_p_value=1	frequency=1.931572e-02	genotype_quality=838.4	ks_quality_p_value=0.926675	log10_base_likelihood=-11.7768	log10_qual_likelihood_position_model=2.22164	log10_strand_likelihood_position_model=0.422254	new_cov=2/2	polymorphism_quality=6.4	quality=6.4	quality_position_model=3.84692e-11	ref_cov=99/104	reject=INDEL_HOMOPOLYMER	tot_cov=101/106
RA	464	.	NC_007779	4197139	0	T	G	bias_e_value=2.0086e-10	bias_p_value=4.32298e-17	fisher_strand_p_value=1.0189e-18	frequency=1.486802e-01	genotype_quality=565.5	ks_quality_p_value=1	log10_base_likelihood=-24.8747	log10_qual_likelihood_position_model=31.5368	log10_strand_likelihood_position_model=17.9919	new_cov=30/0	polymorphism_quality=19.6	quality=19.6	quality_position_model=Inf	ref_cov=24/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=54/114
RA	465	.	NC_007779	4207565	0	C	A	bias_e_value=217.469	bias_p_value=4.68045e-05	fisher_strand_p_value=4.46582e-06	frequency=5.942535e-02	genotype_quality=778.1	ks_quality_p_value=0.771882	log10_base_likelihood=-14.4594	log10_qual_likelihood_position_model=15.6608	log10_strand_likelihood_position_model=5.47403	new_cov=18/0	polymorphism_quality=9.1	quality=9.1	quality_position_model=Inf	ref_cov=108/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/120
RA	466	.	NC_007779	4227183	0	T	G	bias_e_value=1.28769e-07	bias_p_value=2.77142e-14	fisher_strand_p_value=7.74256e-16	frequency=8.158302e-02	genotype_quality=764.9	ks_quality_p_value=1	log10_base_likelihood=-6.75166	log10_qual_likelihood_position_model=31.6441	log10_strand_likelihood_position_model=15.1111	new_cov=41/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=81/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/135
RA	467	.	NC_007779	4318992	0	T	G	bias_e_value=340.45	bias_p_value=7.32728e-05	fisher_strand_p_value=5.59615e-06	frequency=4.420185e-02	genotype_quality=537.0	ks_quality_p_value=1	log10_base_likelihood=-11.1009	log10_qual_likelihood_position_model=11.6291	log10_strand_likelihood_position_model=5.26239	new_cov=2/7	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=136/13	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/20
RA	468	.	NC_007779	4318994	0	A	G	bias_e_value=4.71091	bias_p_value=1.0139e-06	fisher_strand_p_value=5.74033e-08	frequency=4.477787e-02	genotype_quality=563.1	ks_quality_p_value=0.999373	log10_base_likelihood=-9.39584	log10_qual_likelihood_position_model=10.2077	log10_strand_likelihood_position_model=7.24106	new_cov=0/7	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=136/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/17
RA	469	.	NC_007779	4321435	0	G	C	bias_e_value=0.0166045	bias_p_value=3.57369e-09	fisher_strand_p_value=1.52134e-10	frequency=7.299328e-02	genotype_quality=493.1	ks_quality_p_value=0.994878	log10_base_likelihood=-21.0721	log10_qual_likelihood_position_model=9.71784	log10_strand_likelihood_position_model=9.81778	new_cov=9/0	polymorphism_quality=15.8	quality=15.8	quality_position_model=0.00340659	ref_cov=5/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=14/109
RA	470	.	NC_007779	4337469	0	A	C	bias_e_value=2.21096e-17	bias_p_value=4.75851e-24	fisher_strand_p_value=8.09604e-26	frequency=1.549196e-01	genotype_quality=677.8	ks_quality_p_value=1	log10_base_likelihood=-19.6961	log10_qual_likelihood_position_model=40.3077	log10_strand_likelihood_position_model=25.0917	new_cov=0/49	polymorphism_quality=14.4	quality=14.4	quality_position_model=Inf	ref_cov=137/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/88
RA	471	.	NC_007779	4342787	1	.	A	bias_e_value=2079550	bias_p_value=0.447567	fisher_strand_p_value=0.225877	frequency=8.584023e-03	genotype_quality=1157.4	ks_quality_p_value=0.694782	log10_base_likelihood=-8.38711	log10_qual_likelihood_position_model=1.35408	log10_strand_likelihood_position_model=0.646128	new_cov=0/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.54025e-08	ref_cov=122/109	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/111
RA	472	.	NC_007779	4347969	0	G	.	bias_e_value=3394480	bias_p_value=0.730571	fisher_strand_p_value=0.521669	frequency=9.298325e-03	genotype_quality=907.4	ks_quality_p_value=0.695322	log10_base_likelihood=-5.85766	log10_qual_likelihood_position_model=0.957502	log10_strand_likelihood_position_model=0.431638	new_cov=2/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=2.48597e-06	ref_cov=129/84	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/84
RA	473	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=1041.3	new_cov=109/94	quality=1041.3	ref_cov=0/0	tot_cov=109/94
RA	474	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=1041.3	new_cov=109/94	quality=1041.3	ref_cov=0/0	tot_cov=109/94
RA	475	.	NC_007779	4414724	1	.	T	bias_e_value=3836650	bias_p_value=0.825736	fisher_strand_p_value=0.590688	frequency=1.709366e-02	genotype_quality=1157.9	ks_quality_p_value=0.797649	log10_base_likelihood=-18.1078	log10_qual_likelihood_position_model=1.929	log10_strand_likelihood_position_model=0.555919	new_cov=2/2	polymorphism_quality=12.8	quality=12.8	quality_position_model=9.60512e-18	ref_cov=71/159	reject=INDEL_HOMOPOLYMER	tot_cov=73/161
RA	476	.	NC_007779	4429120	0	G	T	bias_e_value=1.35231	bias_p_value=2.9105e-07	fisher_strand_p_value=1.87662e-08	frequency=4.833746e-02	genotype_quality=798.2	ks_quality_p_value=0.816539	log10_base_likelihood=-6.15234	log10_qual_likelihood_position_model=23.9803	log10_strand_likelihood_position_model=7.72662	new_cov=0/22	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=131/94	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/117
RA	477	.	NC_007779	4455463	0	T	G	bias_e_value=1.39709e-05	bias_p_value=3.00688e-12	fisher_strand_p_value=9.72045e-14	frequency=6.328535e-02	genotype_quality=768.6	ks_quality_p_value=0.99905	log10_base_likelihood=-10.4672	log10_qual_likelihood_position_model=22.4589	log10_strand_likelihood_position_model=13.0123	new_cov=21/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=40/160	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=61/160
RA	478	.	NC_007779	4494104	0	C	A	bias_e_value=23070.6	bias_p_value=0.00496534	fisher_strand_p_value=0.000588449	frequency=3.053761e-02	genotype_quality=886.6	ks_quality_p_value=1	log10_base_likelihood=-6.42629	log10_qual_likelihood_position_model=11.5348	log10_strand_likelihood_position_model=3.27598	new_cov=12/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=125/115	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/115
RA	479	.	NC_007779	4540870	0	T	G	bias_e_value=1.87249e-12	bias_p_value=4.03003e-19	fisher_strand_p_value=8.5364e-21	frequency=1.031070e-01	genotype_quality=774.9	ks_quality_p_value=1	log10_base_likelihood=-17.9804	log10_qual_likelihood_position_model=31.9892	log10_strand_likelihood_position_model=20.0687	new_cov=40/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=52/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=92/155
RA	480	.	NC_007779	4540877	0	A	T	bias_e_value=4.16655e-07	bias_p_value=8.9674e-14	fisher_strand_p_value=2.59278e-15	frequency=1.038222e-01	genotype_quality=785.8	ks_quality_p_value=1	log10_base_likelihood=-22.2545	log10_qual_likelihood_position_model=20.922	log10_strand_likelihood_position_model=14.5862	new_cov=27/0	polymorphism_quality=17.0	quality=17.0	quality_position_model=Inf	ref_cov=51/159	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=78/159
RA	481	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=806.6	new_cov=105/85	quality=806.6	ref_cov=0/0	tot_cov=105/85
RA	482	.	NC_007779	4553745	0	C	A	bias_e_value=29099.3	bias_p_value=0.00626285	fisher_strand_p_value=0.000835277	frequency=3.139305e-02	genotype_quality=816.6	ks_quality_p_value=0.91728	log10_base_likelihood=-5.89347	log10_qual_likelihood_position_model=14.5561	log10_strand_likelihood_position_model=3.23356	new_cov=11/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=116/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/118
RA	483	.	NC_007779	4554532	0	T	C	bias_e_value=15597.5	bias_p_value=0.00335695	fisher_strand_p_value=0.00037801	frequency=4.180908e-02	genotype_quality=636.5	ks_quality_p_value=1	log10_base_likelihood=-9.71895	log10_qual_likelihood_position_model=11.4893	log10_strand_likelihood_position_model=3.44222	new_cov=9/1	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=59/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=68/127
RA	484	.	NC_007779	4577828	0	A	C	bias_e_value=1511800	bias_p_value=0.325375	fisher_strand_p_value=0.500233	frequency=6.989479e-03	genotype_quality=1180.8	ks_quality_p_value=0.195686	log10_base_likelihood=-5.71829	log10_qual_likelihood_position_model=1.49892	log10_strand_likelihood_position_model=0.55039	new_cov=0/2	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.71458e-05	ref_cov=134/150	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=134/152
RA	485	.	NC_007779	4578176	0	A	G	bias_e_value=0.193686	bias_p_value=4.16859e-08	fisher_strand_p_value=1.98131e-09	frequency=5.544996e-02	genotype_quality=624.5	ks_quality_p_value=1	log10_base_likelihood=-6.19125	log10_qual_likelihood_position_model=16.2628	log10_strand_likelihood_position_model=8.70305	new_cov=13/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=30/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=43/135
RA	486	.	NC_007779	4599760	0	C	A	bias_e_value=0.0430475	bias_p_value=9.26483e-09	fisher_strand_p_value=4.09664e-10	frequency=6.769276e-02	genotype_quality=909.9	ks_quality_p_value=1	log10_base_likelihood=-13.2711	log10_qual_likelihood_position_model=20.1576	log10_strand_likelihood_position_model=9.38757	new_cov=27/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=107/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/148
RA	487	.	NC_007779	4610781	0	A	C	bias_e_value=0.00085995	bias_p_value=1.85082e-10	fisher_strand_p_value=6.93327e-12	frequency=6.807804e-02	genotype_quality=860.5	ks_quality_p_value=1	log10_base_likelihood=-13.7107	log10_qual_likelihood_position_model=25.9101	log10_strand_likelihood_position_model=11.1591	new_cov=0/29	polymorphism_quality=8.3	quality=8.3	quality_position_model=Inf	ref_cov=149/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/120
RA	488	.	NC_007779	4613456	0	C	A	bias_e_value=16.6101	bias_p_value=3.57488e-06	fisher_strand_p_value=2.36254e-07	frequency=6.642532e-02	genotype_quality=810.5	ks_quality_p_value=0.92633	log10_base_likelihood=-13.0137	log10_qual_likelihood_position_model=18.2681	log10_strand_likelihood_position_model=6.7083	new_cov=26/0	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=131/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=158/117
RA	489	.	NC_007779	4626144	0	C	T	bias_e_value=4177630	bias_p_value=0.899123	fisher_strand_p_value=0.651782	frequency=2.093887e-02	genotype_quality=963.3	ks_quality_p_value=0.898914	log10_base_likelihood=-9.22034	log10_qual_likelihood_position_model=3.98067	log10_strand_likelihood_position_model=0.606211	new_cov=2/3	polymorphism_quality=3.8	quality=3.8	quality_position_model=1.67225e-06	ref_cov=135/95	tot_cov=137/98
RA	490	.	NC_007779	4635770	0	G	T	bias_e_value=854.94	bias_p_value=0.000184003	fisher_strand_p_value=1.52154e-05	frequency=4.565620e-02	genotype_quality=724.8	ks_quality_p_value=1	log10_base_likelihood=-6.63396	log10_qual_likelihood_position_model=13.2624	log10_strand_likelihood_position_model=5.02496	new_cov=0/20	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=106/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/145
RA	491	.	NC_007779	4636470	0	C	G	bias_e_value=0.00778689	bias_p_value=1.67592e-09	fisher_strand_p_value=6.86809e-11	frequency=4.874754e-02	genotype_quality=842.8	ks_quality_p_value=1	log10_base_likelihood=-7.95019	log10_qual_likelihood_position_model=18.2566	log10_strand_likelihood_position_model=10.1632	new_cov=15/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=38/172	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=53/172
RA	492	.	NC_007779	4636473	0	A	G	bias_e_value=0.00121532	bias_p_value=2.61566e-10	fisher_strand_p_value=9.93217e-12	frequency=4.531384e-02	genotype_quality=793.1	ks_quality_p_value=1	log10_base_likelihood=-6.47658	log10_qual_likelihood_position_model=19.5886	log10_strand_likelihood_position_model=11.003	new_cov=13/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=23/179	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=37/179
MC	493	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=237	right_inside_cov=0	right_outside_cov=236
MC	494	.	NC_007779	654214	655412	1196	0	left_inside_cov=0	left_outside_cov=266	right_inside_cov=0	right_outside_cov=268
MC	495	.	NC_007779	1288307	1288518	68	59	left_inside_cov=175	left_outside_cov=180	right_inside_cov=176	right_outside_cov=183
MC	496	.	NC_007779	1301041	1302376	1326	0	left_inside_cov=1	left_outside_cov=227	right_inside_cov=0	right_outside_cov=226
MC	497	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=274	right_inside_cov=0	right_outside_cov=275
MC	498	.	NC_007779	2176983	2178208	0	0	left_inside_cov=0	left_outside_cov=288	right_inside_cov=0	right_outside_cov=204
MC	499	.	NC_007779	2320795	2322130	1329	0	left_inside_cov=0	left_outside_cov=269	right_inside_cov=0	right_outside_cov=267
MC	500	.	NC_007779	3128826	3147473	1173	0	left_inside_cov=175	left_outside_cov=178	right_inside_cov=0	right_outside_cov=387
MC	501	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=0	left_outside_cov=268	right_inside_cov=0	right_outside_cov=356
MC	502	.	NC_007779	3742936	3744271	1327	0	left_inside_cov=0	left_outside_cov=306	right_inside_cov=0	right_outside_cov=308
MC	503	.	NC_007779	3746911	3748109	0	1197	left_inside_cov=1	left_outside_cov=301	right_inside_cov=0	right_outside_cov=301
MC	504	.	NC_007779	3750591	3751789	1197	0	left_inside_cov=0	left_outside_cov=287	right_inside_cov=0	right_outside_cov=284
MC	505	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=292	right_inside_cov=0	right_outside_cov=293
MC	506	.	NC_007779	4310363	4311561	0	0	left_inside_cov=0	left_outside_cov=291	right_inside_cov=0	right_outside_cov=290
JC	507	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=134	coverage_plus=121	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1__1__NC_007779__4646332__-1__0____101__101__0__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=48	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=256	pos_hash_score=131	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=255
JC	508	.	NC_007779	49661	1	NC_007779	273179	1	0	alignment_overlap=0	coverage_minus=6	coverage_plus=6	flanking_left=101	flanking_right=101	frequency=5.405405e-02	junction_possible_overlap_registers=90	key=NC_007779__49661__1__NC_007779__273179__1__0____101__101__0__1	max_left=92	max_left_minus=92	max_left_plus=84	max_min_left=35	max_min_left_minus=35	max_min_left_plus=35	max_min_right=50	max_min_right_minus=9	max_min_right_plus=50	max_pos_hash_score=180	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.06	new_junction_frequency=5.405405e-02	new_junction_read_count=14	pos_hash_score=11	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.04	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=245	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=12
JC	509	.	NC_007779	49664	-1	NC_007779	274373	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=0	flanking_left=101	flanking_right=101	frequency=2.092050e-02	junction_possible_overlap_registers=90	key=NC_007779__49664__-1__NC_007779__274373__-1__0____101__101__0__1	max_left=82	max_left_minus=82	max_left_plus=0	max_min_left=31	max_min_left_minus=31	max_min_left_plus=0	max_min_right=37	max_min_right_minus=37	max_min_right_plus=0	max_pos_hash_score=180	max_right=70	max_right_minus=70	max_right_plus=0	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=2.092050e-02	new_junction_read_count=5	pos_hash_score=3	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.99	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=234	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=3
JC	510	.	NC_007779	273179	1	NC_007779	657877	1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=5	flanking_left=101	flanking_right=101	frequency=3.461538e-02	junction_possible_overlap_registers=90	key=NC_007779__273179__1__NC_007779__657877__1__0____101__101__1__0	max_left=68	max_left_minus=68	max_left_plus=59	max_min_left=46	max_min_left_minus=44	max_min_left_plus=46	max_min_right=45	max_min_right_minus=37	max_min_right_plus=45	max_pos_hash_score=180	max_right=83	max_right_minus=57	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.04	new_junction_frequency=3.461538e-02	new_junction_read_count=9	pos_hash_score=9	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.07	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=251	side_2_redundant=0	total_non_overlap_reads=9
JC	511	.	NC_007779	274373	-1	NC_007779	657880	-1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=4	flanking_left=101	flanking_right=101	frequency=3.088803e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__657880__-1__0____101__101__1__0	max_left=66	max_left_minus=44	max_left_plus=66	max_min_left=49	max_min_left_minus=44	max_min_left_plus=49	max_min_right=44	max_min_right_minus=0	max_min_right_plus=44	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=57	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.03	new_junction_frequency=3.088803e-02	new_junction_read_count=8	pos_hash_score=8	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.07	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=251	side_2_redundant=0	total_non_overlap_reads=8
JC	512	.	NC_007779	274373	-1	NC_007779	675375	1	0	alignment_overlap=0	coverage_minus=15	coverage_plus=14	flanking_left=101	flanking_right=101	frequency=8.357349e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__675375__1__0____101__101__1__0	max_left=77	max_left_minus=71	max_left_plus=77	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=49	max_min_right_minus=45	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.12	new_junction_frequency=8.357349e-02	new_junction_read_count=29	pos_hash_score=26	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.35	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=318	side_2_redundant=0	total_non_overlap_reads=29
JC	513	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=10	coverage_minus=91	coverage_plus=91	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371963__1__10____101__101__0__0	max_left=85	max_left_minus=85	max_left_plus=81	max_min_left=45	max_min_left_minus=45	max_min_left_plus=45	max_min_right=45	max_min_right_minus=45	max_min_right_plus=41	max_pos_hash_score=160	max_right=85	max_right_minus=85	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.88	new_junction_frequency=1.000000e+00	new_junction_read_count=185	pos_hash_score=106	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=10	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=182
JC	514	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=105	coverage_plus=65	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=57	key=NC_007779__289856__1__NC_007779__2176982__-1__-33__CTATTGCAATACCGCATTGTGAGGCGATTCATG__101__101__1__0	max_left=62	max_left_minus=62	max_left_plus=61	max_min_left=33	max_min_left_minus=33	max_min_left_plus=33	max_min_right=34	max_min_right_minus=34	max_min_right_plus=34	max_pos_hash_score=114	max_right=62	max_right_minus=61	max_right_plus=62	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.15	new_junction_frequency=1.000000e+00	new_junction_read_count=171	pos_hash_score=85	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=170	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	515	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=131	coverage_plus=95	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=90	key=NC_007779__380484__1__NC_007779__381407__-1__0____101__101__1__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=47	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=NA	new_junction_read_count=227	pos_hash_score=125	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=226
JC	516	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=111	coverage_plus=126	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=88	key=NC_007779__381401__1__NC_007779__381814__-1__2____101__101__1__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=92	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=NA	new_junction_read_count=238	pos_hash_score=126	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=2	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=237
JC	517	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=103	coverage_plus=135	flanking_left=101	flanking_right=101	frequency=9.723546e-01	junction_possible_overlap_registers=87	key=NC_007779__608573__-1__NC_007779__1305025__1__3____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=92	max_min_left=48	max_min_left_minus=46	max_min_left_plus=48	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=174	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.723546e-01	new_junction_read_count=238	pos_hash_score=121	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=7	side_2_redundant=0	total_non_overlap_reads=238
JC	518	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=122	coverage_plus=108	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=85	key=NC_007779__654213__-1__NC_007779__655408__1__5____101__101__0__0	max_left=89	max_left_minus=88	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=46	max_min_right=48	max_min_right_minus=46	max_min_right_plus=48	max_pos_hash_score=170	max_right=90	max_right_minus=90	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=231	pos_hash_score=124	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=5	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=85	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=230
JC	519	.	NC_007779	678974	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=2.024291e-02	junction_possible_overlap_registers=90	key=NC_007779__678974__1__NC_007779__689467__-1__0____101__101__0__1	max_left=54	max_left_minus=43	max_left_plus=54	max_min_left=43	max_min_left_minus=43	max_min_left_plus=43	max_min_right=46	max_min_right_minus=0	max_min_right_plus=46	max_pos_hash_score=180	max_right=66	max_right_minus=64	max_right_plus=66	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=2.024291e-02	new_junction_read_count=5	pos_hash_score=5	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.03	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=242	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=5
JC	520	.	NC_007779	679235	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=1	flanking_left=101	flanking_right=101	frequency=1.298701e-02	junction_possible_overlap_registers=90	key=NC_007779__679235__1__NC_007779__689467__-1__0____101__101__0__1	max_left=84	max_left_minus=84	max_left_plus=40	max_min_left=40	max_min_left_minus=18	max_min_left_plus=40	max_min_right=30	max_min_right_minus=30	max_min_right_plus=0	max_pos_hash_score=180	max_right=83	max_right_minus=83	max_right_plus=61	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=1.298701e-02	new_junction_read_count=4	pos_hash_score=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.29	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=304	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=4
JC	521	.	NC_007779	679570	1	NC_007779	689466	-1	0	alignment_overlap=1	coverage_minus=2	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=1.761390e-02	junction_possible_overlap_registers=89	key=NC_007779__679570__1__NC_007779__689467__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=92	max_min_left=44	max_min_left_minus=44	max_min_left_plus=0	max_min_right=31	max_min_right_minus=6	max_min_right_plus=31	max_pos_hash_score=178	max_right=56	max_right_minus=56	max_right_plus=31	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=1.761390e-02	new_junction_read_count=5	pos_hash_score=5	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.20	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=282	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=5
JC	522	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=44	coverage_plus=44	flanking_left=101	flanking_right=101	frequency=4.599837e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=79	max_left_minus=78	max_left_plus=79	max_min_left=41	max_min_left_minus=41	max_min_left_plus=40	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=148	max_right=79	max_right_minus=79	max_right_plus=79	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.45	new_junction_frequency=4.599837e-01	new_junction_read_count=88	pos_hash_score=66	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.46	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=109	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.60	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=117	side_2_redundant=0	total_non_overlap_reads=88
JC	523	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=42	coverage_plus=36	flanking_left=101	flanking_right=101	frequency=4.292265e-01	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=77	max_left_minus=77	max_left_plus=73	max_min_left=42	max_min_left_minus=42	max_min_left_plus=41	max_min_right=42	max_min_right_minus=42	max_min_right_plus=40	max_pos_hash_score=148	max_right=79	max_right_minus=79	max_right_plus=76	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.40	new_junction_frequency=4.292265e-01	new_junction_read_count=78	pos_hash_score=63	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.47	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=110	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.60	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=117	side_2_redundant=0	total_non_overlap_reads=78
JC	524	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=87	coverage_plus=113	flanking_left=101	flanking_right=101	frequency=9.715026e-01	junction_possible_overlap_registers=88	key=NC_007779__1221489__1__NC_007779__1301039__1__2____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=86	max_right_minus=86	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.87	new_junction_frequency=9.715026e-01	new_junction_read_count=200	pos_hash_score=110	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=6	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=200
JC	525	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=93	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1221495__-1__NC_007779__1302369__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=90	max_right_minus=90	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.86	new_junction_frequency=1.000000e+00	new_junction_read_count=203	pos_hash_score=113	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=202
JC	526	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=89	coverage_plus=95	flanking_left=101	flanking_right=101	frequency=9.975002e-01	junction_possible_overlap_registers=83	key=NC_007779__1301040__-1__NC_007779__1302370__1__7____101__101__0__0	max_left=88	max_left_minus=88	max_left_plus=88	max_min_left=46	max_min_left_minus=46	max_min_left_plus=45	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=166	max_right=88	max_right_minus=88	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=9.975002e-01	new_junction_read_count=184	pos_hash_score=104	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=7	side_1_possible_overlap_registers=90	side_1_read_count=1	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=83	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=184
JC	527	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=116	coverage_plus=125	flanking_left=101	flanking_right=101	frequency=9.805606e-01	junction_possible_overlap_registers=86	key=NC_007779__1305037__-1__NC_007779__2519719__1__4____101__101__0__1	max_left=91	max_left_minus=91	max_left_plus=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=9.805606e-01	new_junction_read_count=241	pos_hash_score=128	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=5	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=241
JC	528	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=90	coverage_plus=107	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1397758__1__NC_007779__1672777__1__0____101__101__1__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.84	new_junction_frequency=1.000000e+00	new_junction_read_count=197	pos_hash_score=109	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=197
JC	529	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=95	coverage_plus=84	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=64	key=NC_007779__1413638__-1__NC_007779__1436673__1__26____101__101__0__0	max_left=69	max_left_minus=69	max_left_plus=69	max_min_left=37	max_min_left_minus=35	max_min_left_plus=37	max_min_right=37	max_min_right_minus=36	max_min_right_plus=37	max_pos_hash_score=128	max_right=69	max_right_minus=69	max_right_plus=69	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=179	pos_hash_score=95	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=26	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=64	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=179
JC	530	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=96	coverage_plus=109	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1672780__-1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=85	max_right_minus=85	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.87	new_junction_frequency=1.000000e+00	new_junction_read_count=206	pos_hash_score=115	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=205
JC	531	.	NC_007779	1907280	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=126	coverage_plus=110	flanking_left=101	flanking_right=101	frequency=9.595142e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=9.595142e-01	new_junction_read_count=237	pos_hash_score=134	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=10	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=236
JC	532	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=112	coverage_plus=122	flanking_left=101	flanking_right=101	frequency=9.397590e-01	junction_possible_overlap_registers=90	key=NC_007779__1907288__-1__NC_007779__2411458__1__0____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=9.397590e-01	new_junction_read_count=234	pos_hash_score=126	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=15	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=234
JC	533	.	NC_007779	1980091	1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=114	coverage_plus=41	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1980091__1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=43	max_min_right=50	max_min_right_minus=50	max_min_right_plus=38	max_pos_hash_score=180	max_right=93	max_right_minus=93	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.66	new_junction_frequency=1.000000e+00	new_junction_read_count=155	pos_hash_score=83	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=155
JC	534	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=135	coverage_plus=112	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__1980095__-1__NC_007779__2176983__1__1____101__101__0__1	max_left=94	max_left_minus=93	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=247	pos_hash_score=132	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=247
JC	535	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=98	coverage_plus=91	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2178209__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=89	max_right_minus=85	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.80	new_junction_frequency=1.000000e+00	new_junction_read_count=189	pos_hash_score=106	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=189
JC	536	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=116	coverage_plus=106	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__2320794__-1__NC_007779__2322125__1__6____101__101__0__0	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=46	max_min_right_minus=46	max_min_right_plus=46	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=222	pos_hash_score=119	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=6	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=84	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=222
JC	537	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=73	coverage_plus=118	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2320794__1__NC_007779__2589834__-1__0____101__101__1__0	max_left=85	max_left_minus=85	max_left_plus=85	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.81	new_junction_frequency=1.000000e+00	new_junction_read_count=191	pos_hash_score=109	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=191
JC	538	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=132	coverage_plus=144	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2322124__-1__NC_007779__2589830__1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.18	new_junction_frequency=1.000000e+00	new_junction_read_count=277	pos_hash_score=137	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=276
JC	539	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=117	coverage_plus=103	flanking_left=101	flanking_right=101	frequency=9.691630e-01	junction_possible_overlap_registers=90	key=NC_007779__2411458__1__NC_007779__2985055__-1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=49	max_min_left_minus=49	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.93	new_junction_frequency=9.691630e-01	new_junction_read_count=220	pos_hash_score=119	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=7	side_2_redundant=0	total_non_overlap_reads=220
JC	540	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=98	coverage_plus=96	flanking_left=101	flanking_right=101	frequency=9.466019e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__1__0____101__101__1__0	max_left=91	max_left_minus=86	max_left_plus=91	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.83	new_junction_frequency=9.466019e-01	new_junction_read_count=195	pos_hash_score=110	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=11	side_2_redundant=0	total_non_overlap_reads=194
JC	541	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=102	coverage_plus=105	flanking_left=101	flanking_right=101	frequency=6.503526e-01	junction_possible_overlap_registers=86	key=NC_007779__2865229__1__NC_007779__2865278__-1__4____101__101__0__0	max_left=90	max_left_minus=90	max_left_plus=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=46	max_min_right=47	max_min_right_minus=46	max_min_right_plus=47	max_pos_hash_score=172	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=6.503526e-01	new_junction_read_count=207	pos_hash_score=114	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.52	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=122	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.47	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=207
JC	542	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=111	coverage_plus=140	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3147474__1__NC_007779__3262328__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=252	pos_hash_score=135	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=251
JC	543	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=127	coverage_plus=123	flanking_left=101	flanking_right=101	frequency=9.922433e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=9.922433e-01	new_junction_read_count=253	pos_hash_score=128	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.01	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=250
JC	544	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=130	coverage_plus=113	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__3261133__-1__NC_007779__3748109__-1__-6__CTTTGC__101__101__0__1	max_left=88	max_left_minus=88	max_left_plus=88	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.11	new_junction_frequency=1.000000e+00	new_junction_read_count=244	pos_hash_score=127	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=243	unique_read_sequence=CTTTGC
JC	545	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=82	coverage_plus=106	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3261134__1__NC_007779__3265774__1__0____101__101__1__0	max_left=85	max_left_minus=84	max_left_plus=85	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.80	new_junction_frequency=1.000000e+00	new_junction_read_count=189	pos_hash_score=101	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=188
JC	546	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=120	coverage_plus=121	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3261134__1__NC_007779__3262338__1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=178	max_right=94	max_right_minus=93	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=242	pos_hash_score=124	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=241
JC	547	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=139	coverage_plus=120	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3265777__-1__NC_007779__3365411__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.11	new_junction_frequency=1.000000e+00	new_junction_read_count=261	pos_hash_score=127	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=259
JC	548	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=80	coverage_plus=120	flanking_left=101	flanking_right=101	frequency=9.665467e-01	junction_possible_overlap_registers=89	key=NC_007779__3512759__-1__NC_007779__3744263__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=178	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.86	new_junction_frequency=9.665467e-01	new_junction_read_count=200	pos_hash_score=107	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=7	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=200
JC	549	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=123	coverage_plus=119	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=82	key=NC_007779__3742935__-1__NC_007779__3744264__1__8____101__101__0__0	max_left=87	max_left_minus=87	max_left_plus=86	max_min_left=46	max_min_left_minus=43	max_min_left_plus=46	max_min_right=46	max_min_right_minus=46	max_min_right_plus=46	max_pos_hash_score=164	max_right=87	max_right_minus=87	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.13	new_junction_frequency=1.000000e+00	new_junction_read_count=243	pos_hash_score=131	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=82	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=242
JC	550	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=126	coverage_plus=98	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3744263__-1__NC_007779__3903274__1__0____101__101__1__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=48	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=1.000000e+00	new_junction_read_count=224	pos_hash_score=118	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=224
JC	551	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=133	coverage_plus=122	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3746910__-1__NC_007779__3748106__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=89	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.14	new_junction_frequency=1.000000e+00	new_junction_read_count=256	pos_hash_score=125	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=255
JC	552	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=131	coverage_plus=112	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3746911__1__NC_007779__3748646__-1__0____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=92	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.11	new_junction_frequency=1.000000e+00	new_junction_read_count=262	pos_hash_score=131	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=243
JC	553	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=118	coverage_plus=126	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3748105__-1__NC_007779__3748643__1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=245	pos_hash_score=131	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=244
JC	554	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=115	coverage_plus=117	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3750590__-1__NC_007779__3751786__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=46	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=234	pos_hash_score=128	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=232
JC	555	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=125	coverage_plus=117	flanking_left=101	flanking_right=101	frequency=9.879387e-01	junction_possible_overlap_registers=89	key=NC_007779__3903279__-1__NC_007779__4504191__-1__1____101__101__0__1	max_left=94	max_left_minus=93	max_left_plus=94	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=9.879387e-01	new_junction_read_count=243	pos_hash_score=137	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=242
JC	556	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=115	coverage_plus=135	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=88	key=NC_007779__3958122__-1__NC_007779__3958155__1__2____101__101__0__0	max_left=93	max_left_minus=92	max_left_plus=93	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	max_min_right=49	max_min_right_minus=48	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=250	pos_hash_score=129	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=88	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=250
JC	557	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=115	coverage_plus=115	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3987185__1__NC_007779__4009203__-1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=231	pos_hash_score=118	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=230
JC	558	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=136	coverage_plus=118	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3988379__-1__NC_007779__4009199__1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=47	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=255	pos_hash_score=137	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=254
JC	559	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=130	coverage_plus=116	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__4310362__-1__NC_007779__4311558__1__4____101__101__0__0	max_left=90	max_left_minus=90	max_left_plus=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.10	new_junction_frequency=1.000000e+00	new_junction_read_count=247	pos_hash_score=124	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=246
JC	560	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=120	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4310363__1__NC_007779__4353540__1__0____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=48	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=1.000000e+00	new_junction_read_count=243	pos_hash_score=129	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=229
JC	561	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=117	coverage_plus=125	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4311557__-1__NC_007779__4353543__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=251	pos_hash_score=131	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=242
JC	562	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=115	coverage_plus=149	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4355060__1__NC_007779__4502861__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.13	new_junction_frequency=1.000000e+00	new_junction_read_count=265	pos_hash_score=135	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=264
JC	563	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=114	coverage_plus=118	flanking_left=101	flanking_right=101	frequency=9.636063e-01	junction_possible_overlap_registers=88	key=NC_007779__4355066__-1__NC_007779__4504191__-1__2____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=92	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=9.636063e-01	new_junction_read_count=233	pos_hash_score=131	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=9	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=232
JC	564	.	NC_007779	4547362	1	NC_007779	4547676	1	0	alignment_overlap=9	coverage_minus=5	coverage_plus=6	flanking_left=101	flanking_right=101	frequency=5.804749e-02	junction_possible_overlap_registers=81	key=NC_007779__4547362__1__NC_007779__4547667__1__9____101__101__0__0	max_left=70	max_left_minus=70	max_left_plus=69	max_min_left=43	max_min_left_minus=34	max_min_left_plus=43	max_min_right=38	max_min_right_minus=38	max_min_right_plus=35	max_pos_hash_score=162	max_right=82	max_right_minus=59	max_right_plus=82	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.05	new_junction_frequency=5.804749e-02	new_junction_read_count=11	pos_hash_score=11	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.81	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=190	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.88	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=186	side_2_redundant=0	total_non_overlap_reads=11
JC	565	.	NC_007779	4547370	-1	NC_007779	4547666	-1	0	alignment_overlap=9	coverage_minus=6	coverage_plus=8	flanking_left=101	flanking_right=101	frequency=7.358739e-02	junction_possible_overlap_registers=81	key=NC_007779__4547370__-1__NC_007779__4547675__-1__9____101__101__0__0	max_left=84	max_left_minus=84	max_left_plus=73	max_min_left=41	max_min_left_minus=41	max_min_left_plus=24	max_min_right=46	max_min_right_minus=44	max_min_right_plus=46	max_pos_hash_score=162	max_right=84	max_right_minus=68	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.07	new_junction_frequency=7.358739e-02	new_junction_read_count=14	pos_hash_score=12	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.79	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=185	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.88	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=186	side_2_redundant=0	total_non_overlap_reads=14
UN	566	.	NC_007779	15485	16634
UN	567	.	NC_007779	19892	20466
UN	568	.	NC_007779	223637	223642
UN	569	.	NC_007779	223840	224673
UN	570	.	NC_007779	224987	225488
UN	571	.	NC_007779	225835	225923
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